Diverse, yet-to-be-cultured members of the Rubrobacter subdivision of the Actinobacteria are widespread in Australian arid soils - PubMed (original) (raw)
Diverse, yet-to-be-cultured members of the Rubrobacter subdivision of the Actinobacteria are widespread in Australian arid soils
AJ Holmes et al. FEMS Microbiol Ecol. 2000.
Free article
Abstract
Phylogenetic analyses of ribosomal RNA gene sequences (rDNAs) retrieved from an Australian desert soil sample (Sturt National Park) revealed the presence of a number of clones which branched deeply from the high GC Gram-positive division line of descent. The most abundant group of these clones were related to Rubrobacter. An oligonucleotide probe was designed to have broad specificity to Rubrobacter and relatives. This probe was used to interrogate eight rDNA libraries representing four distinct land forms within the Australian arid zone. Relative abundance of Rubrobacter-relatives in these samples ranged from 2.6 to 10.2%. Clones from these libraries were selected for sequence analysis on the basis of a heteroduplex mobility assay to maximise the diversity represented in the sample. Phylogenetic analyses of these rDNA clones and Rubrobacter-related clones reported in the literature show strong support for three distinct groups. Database-searching revealed 'Rubrobacteria' were relatively abundant in a number of published soil rDNA libraries but absent from others. A PCR assay for group-1 'Rubrobacteria' was used to test for their presence in 21 environmental samples. Only marine and arid-zone soil samples gave positive PCR results. Taken together these results indicate 'Rubrobacteria' are a widespread group of variable abundance and diversity.
Similar articles
- Rubrobacter-related bacteria associated with rosy discolouration of masonry and lime wall paintings.
Schabereiter-Gurtner C, Piñar G, Vybiral D, Lubitz W, Rölleke S. Schabereiter-Gurtner C, et al. Arch Microbiol. 2001 Nov;176(5):347-54. doi: 10.1007/s002030100333. Arch Microbiol. 2001. PMID: 11702076 - Phylogenetic analysis of partial bacterial 16S rDNA sequences of tropical grass pasture soil under Acacia tortilis subsp. raddiana in Senegal.
Diallo MD, Martens M, Vloemans N, Cousin S, Vandekerckhove TT, Neyra M, de Lajudie P, Willems A, Gillis M, Vyverman W, Van der Gucht K. Diallo MD, et al. Syst Appl Microbiol. 2004 Mar;27(2):238-52. doi: 10.1078/072320204322881862. Syst Appl Microbiol. 2004. PMID: 15046313 - Bacterial community composition in different sediments from the Eastern Mediterranean Sea: a comparison of four 16S ribosomal DNA clone libraries.
Polymenakou PN, Bertilsson S, Tselepides A, Stephanou EG. Polymenakou PN, et al. Microb Ecol. 2005 Oct;50(3):447-62. doi: 10.1007/s00248-005-0005-6. Epub 2005 Nov 23. Microb Ecol. 2005. PMID: 16328662 - Rubrobacter indicoceani sp. nov., a new marine actinobacterium isolated from Indian Ocean sediment.
Chen RW, Wang KX, Wang FZ, He YQ, Long LJ, Tian XP. Chen RW, et al. Int J Syst Evol Microbiol. 2018 Nov;68(11):3487-3493. doi: 10.1099/ijsem.0.003018. Epub 2018 Oct 9. Int J Syst Evol Microbiol. 2018. PMID: 30300120 - Diversity of picoplanktonic prasinophytes assessed by direct nuclear SSU rDNA sequencing of environmental samples and novel isolates retrieved from oceanic and coastal marine ecosystems.
Guillou L, Eikrem W, Chrétiennot-Dinet MJ, Le Gall F, Massana R, Romari K, Pedrós-Alió C, Vaulot D. Guillou L, et al. Protist. 2004 Jun;155(2):193-214. doi: 10.1078/143446104774199592. Protist. 2004. PMID: 15305796
Cited by
- Thriving beneath olive trees: The influence of organic farming on microbial communities.
Wentzien NM, Fernández-González AJ, Villadas PJ, Valverde-Corredor A, Mercado-Blanco J, Fernández-López M. Wentzien NM, et al. Comput Struct Biotechnol J. 2023 Jul 16;21:3575-3589. doi: 10.1016/j.csbj.2023.07.015. eCollection 2023. Comput Struct Biotechnol J. 2023. PMID: 37520283 Free PMC article. - Actinobacteria Community and Their Antibacterial and Cytotoxic Activity on the Weizhou and Xieyang Volcanic Islands in the Beibu Gulf of China.
Wang L, Peng C, Gong B, Yang Z, Song J, Li L, Xu L, Yue T, Wang X, Yang M, Xu H, Liu X. Wang L, et al. Front Microbiol. 2022 Jul 12;13:911408. doi: 10.3389/fmicb.2022.911408. eCollection 2022. Front Microbiol. 2022. PMID: 35903476 Free PMC article. - A Round Trip to the Desert: In situ Nanopore Sequencing Informs Targeted Bioprospecting.
Latorre-Pérez A, Gimeno-Valero H, Tanner K, Pascual J, Vilanova C, Porcar M. Latorre-Pérez A, et al. Front Microbiol. 2021 Dec 13;12:768240. doi: 10.3389/fmicb.2021.768240. eCollection 2021. Front Microbiol. 2021. PMID: 34966365 Free PMC article. - Aridity modulates belowground bacterial community dynamics in olive tree.
Marasco R, Fusi M, Rolli E, Ettoumi B, Tambone F, Borin S, Ouzari HI, Boudabous A, Sorlini C, Cherif A, Adani F, Daffonchio D. Marasco R, et al. Environ Microbiol. 2021 Oct;23(10):6275-6291. doi: 10.1111/1462-2920.15764. Epub 2021 Sep 24. Environ Microbiol. 2021. PMID: 34490977 Free PMC article. - Impact of diesel and biodiesel contamination on soil microbial community activity and structure.
Mitter EK, Germida JJ, de Freitas JR. Mitter EK, et al. Sci Rep. 2021 May 25;11(1):10856. doi: 10.1038/s41598-021-89637-y. Sci Rep. 2021. PMID: 34035323 Free PMC article.
LinkOut - more resources
Full Text Sources
Molecular Biology Databases
Miscellaneous