Linkage map of Escherichia coli K-12, edition 10: the physical map - PubMed (original) (raw)
Review
Linkage map of Escherichia coli K-12, edition 10: the physical map
K E Rudd. Microbiol Mol Biol Rev. 1998 Sep.
Abstract
A physical map, EcoMap10, of the now completely sequenced Escherichia coli chromosome is presented. Calculated genomic positions for the eight restriction enzymes BamHI, HindIII, EcoRI, EcoRV, BglI, KpnI, PstI, and PvuII are depicted. Both sequenced and unsequenced Kohara/Isono miniset clones are aligned to this calculated restriction map. DNA sequence searches identify the precise locations of insertion sequence elements and repetitive extragenic palindrome clusters. EcoGene10, a revised set of genes and functionally uncharacterized open reading frames (ORFs), is also depicted on EcoMap10. The complete set of unnamed ORFs in EcoGene10 are assigned provisional names beginning with the letter "y" by using a systematic nomenclature.
Figures
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
FIG. 1
EcoMap10, a DNA sequence-derived map depicting restriction sites, Kohara/Isono clones, genes, ORFs, IS elements, and REP clusters of the E. coli K-12 chromosome. The derivation of this map from the complete genome sequence of E. coli K-12 strain MG1655 is briefly described in the text. The map depicts sites for eight restriction enzymes (top line to bottom line: _Bam_HI, _Hin_dIII, _Eco_RI, _Eco_RV, _Bgl_I, _Kpn_I, _Pst_I, and _Pvu_II). Above the restriction map are position coordinates in kilobases; immediately below the map are minute coordinates (in 0.1-min increments). Also immediately below the map are the designations R1 to R355 referring to the 355 serially numbered REP clusters, placed at the genomic position of the base pair at their left ends. Some minute designations were omitted as they overlapped with the REP serial numbers, but the tick marks for these unlabeled 0.1-minute positions are present, and their values can be easily determined from the flanking minute values. The first set of spanning lines below the map represent the genomic positions and clone insert orientations of the Kohara miniset clones. Those Kohara miniset clone W3110 chromosomal DNA inserts that have been completely sequenced are additionally labeled with their GenBank/EMBL/DDBJ accession numbers, D90699 to D90892 (1, 9, 13, 22). The second set of spanning lines, labeled with database accession numbers AE000111 to AE000510, represent the locations of the GenBank/EMBL/DDBJ complete-genome MG1655 sequence entries of Blattner et al. (5). The third set of spanning lines depict the positions and orientations of the genes, ORFs, and IS elements that constitute EcoGene10. An asterisk following a gene or ORF name indicates that a frameshift or in-frame stop codon that prevents the EcoGene10 representation of the coding region from being translated is present in the genome sequence. A prime indicates a partial EcoGene entry, i.e., a deletion or IS element insertion is predicted to have disrupted the ancestral complete gene, ORF, or IS element. This figure was created by using the PrintMap Postscript drawing program, which implements the Plasmid Description Language developed by Craig Werner (18).
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