Genetic variation in endangered butter catfish, Ompok bimaculatus (bloch) populations revealed by random amplified polymorphic DNA (RAPD) fingerprinting (original) (raw)
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Stinging catfish (Heteropneustes fossilis) is an important aquaculture fish species in Bangladesh with high nutritive value. Three microsatellite loci (Cba02, Cba19 and Cba20) were tested to study the genetic variation in this species. Samples were collected from two natural populations namely Mohongonj and Narsingdi and from a hatchery population located in Mymensingh of Bangladesh. All the three loci were found to be polymorphic (P95) in the three studied populations. The average observed heterozygosity (H o) value was the highest in Narsingdi population (0.80) followed by the Hatchery (0.70) and the Mohongonj population (0.67). Only Mohongonj population was significantly deviated from Hardy-Weinberg Equilibrium in one locus. The population differentiation value (FST) between all the population pairs was insignificant. The highest genetic distance value (D = 0.47) was found between the Mohongonj and Hatchery populations while the smallest value (D = 0.34) was found between the Mohongonj and Narsingdi as well as Narsingdi and Hatchery populations. The UPGMA dendrogram based on genetic distance resulted in two major clusters: Hatchery stock alone is in one cluster and the remaining two natural stocks are in other cluster. The study also revealed that the Clarias batrachus microsatellites could be effectively used in the assessment of genetic structure of the stinging catfish H. fossilis
Int. J. Integ. Biol, 2009
The present study has focused on the genetic diversity between two feral populations of Aorichthys seenghala (Skyes) of Madhya Pradesh, India. Ten RAPD primers were primarily screened of which five primers gave polymorphism, were selected for the final RAPD analysis. Using these five primers, 659 scorable DNA fragments were found, of which 513 (77.85%) were polymorphic, 140 (21.24%) were monomorphic and 6 (0.91%) were unique. By comparing RAPD banding patterns, variations were found between and within the populations. The unweighted pair group method with averages (UPGMA) dendrogram showed two clusters, the Mohinisagar reservoir (Gwalior) population formed one cluster and the other cluster was represented by the population of Bhadwada reservoir (Bhopal). Although the morphological differences were negligible, using these techniques a little but significant difference was detected in genetic diversity among two populations of Ariochthys seenghala.
Genetic structure of different populations of walking catfish (Clarias batrachus L.) in Bangladesh
Biochemical Genetics, 2007
Information on genetic variation is essential for conservation and stock improvement programs. Seven dinucleotide microsatellite loci were analyzed to reveal genetic variability in three wild populations (Kella beel, Hakaluki haor, and Shobornokhali beel) and one hatchery population of the freshwater walking catfish, Clarias batrachus, in Bangladesh. Upon PCR amplification, the alleles were separated on polyacrylamide gel using a sequencing gel electrophoresis system and visualized by the silver-staining method. The loci were polymorphic (P 95 ) in all the populations. Differences were observed in number and frequency of alleles as well as heterozygosity in the studied populations. Current gene diversity (H e ) was higher than expected under mutation-drift equilibrium, significantly in the Hakaluki haor and Shobornokhali beel populations, indicating a recent genetic bottleneck. Population differentiation (F ST ) values were significant (P < 0.05) in all the population pairs. A relatively high level of gene flow and a low level of F ST values were found between wild population pairs compared to hatchery-wild pairs. The unweighted pair group method with averages dendrogram based on genetic distance resulted in two major clusters: the hatchery population was alone in one cluster whereas the three wild populations made another cluster. The results reflect some degree of genetic variability in C. batrachus populations indicating potentialities for improving this species through a selective breeding program. The results revealed a recent bottleneck in some wild populations of C. batrachus. Protection of habitat may help increase the population size and lower the risk of vulnerability of the species in the future.
Journal of bio-science, 1970
Genetic variation of two strains (Scaled and Mirror) of six hatchery populations of common carp (Cyprinus carpio) was studied using three microsatellite loci (MFW13, MFW17 and MFW28). The loci were amplified by Polymerase Chain Reaction (PCR). The PCR products were electrophoresed on 6% polyacrylamide gel and the alleles were visualized by silver nitrate staining. All the three loci were found polymorphic. The average number of alleles was the highest in the population *SC-SMK (5.00) and lowest in **MC-SMK (4.00). Total number of null allele was more in mirror carp populations (6) than scaled carp populations (4). The average observed heterozygosity (Ho) ranged from 0.54 to 0.67. The average observed heterozygosity (Ho) was lower than the average expected heterozygosity (He) in case of all the populations. The population ***SC-BCH had high level of genetic variation in comparison to other five populations because this population had negative 1-Ho/He values in case of two loci out of three analyzed. The rest five populations had negative 1-Ho/He values only in one locus. In 6 of a total of 18 tests, significant deviations from Hardy-Weinberg expectations (HWE) were detected. Pairwise Fst values were used to detect the genetic distance between the pairs of populations. The Fst value was highest (o.153) between the population MC-AFF and MC-SMK. Nei's genetic distance value was also highest (0.462) between these populations. The Fst value of 0.153 represents a high level of population differentiation. The lowest Fst value (0.001) was found between SC-SMK and MC-SMK. This value was statistically insignificant. *SC-SMK-scaled carp from Sagor Matsho Khamar **MC-SMK-mirror carp from Sagor Matsho Khamar ***SC-BCH-scaled carp from Brahmaputra Char Fishery
Journal of Bio-science, 2007
Genetic variation of two strains (Scaled and Mirror) of six hatchery populations of common carp (Cyprinus carpio) was studied using three microsatellite loci (MFW13, MFW17 and MFW28). The loci were amplified by Polymerase Chain Reaction (PCR). The PCR products were electrophoresed on 6% polyacrylamide gel and the alleles were visualized by silver nitrate staining. All the three loci were found polymorphic. The average number of alleles was the highest in the population *SC-SMK (5.00) and lowest in **MC-SMK (4.00). Total number of null allele was more in mirror carp populations (6) than scaled carp populations (4). The average observed heterozygosity (Ho) ranged from 0.54 to 0.67. The average observed heterozygosity (Ho) was lower than the average expected heterozygosity (He) in case of all the populations. The population ***SC-BCH had high level of genetic variation in comparison to other five populations because this population had negative 1-Ho/He values in case of two loci out of three analyzed. The rest five populations had negative 1-Ho/He values only in one locus. In 6 of a total of 18 tests, significant deviations from Hardy-Weinberg expectations (HWE) were detected. Pairwise Fst values were used to detect the genetic distance between the pairs of populations. The Fst value was highest (o.153) between the population MC-AFF and MC-SMK. Nei's genetic distance value was also highest (0.462) between these populations. The Fst value of 0.153 represents a high level of population differentiation. The lowest Fst value (0.001) was found between SC-SMK and MC-SMK. This value was statistically insignificant. *SC-SMK-scaled carp from Sagor Matsho Khamar **MC-SMK-mirror carp from Sagor Matsho Khamar ***SC-BCH-scaled carp from Brahmaputra Char Fishery
International Journal of Biodiversity, 2014
Dwarf chameleon fish or Badis badis, a lesser known ornamental freshwater fish, has recently been included in the Indian threatened category of fish list. There are insufficient studies with regard to the assessment of genetic background of this ichthyofauna, especially in the western sub-Himalayan region of West Bengal, India, popularly known as the Terai. The present study is the first attempt to investigate the present status of the genetic background of this species in the Mahananda and Balason rivers, major streams of this region. Twenty-one selective RAPD primers generated 53 and 60 polymorphic fragments in the Mahananda and Balason populations, respectively. The proportion of polymorphic loci, Nei's genetic diversity (H), and Shannon's index ( ) were 0.4416, 0.1654 ± 0.2023, and 0.2450 ± 0.2907, respectively, in Mahananda river population and were 0.5041, 0.1983 ± 0.2126, and 0.2901 ± 0.3037, respectively, in Balason river population. Inbreeding coefficient and degree of gene differentiation were also calculated. The H and were found to be 0.1601±0.1944 and 0.2363±0.2782, respectively, in overall Mahananda-Balason river system. Our study revealed considerable lack of genetic variation among the individuals of Badis badis. The genetic data obtained from the present study lend support to the view that there is a scope of stock improvement for this ichthyofauna.
2006
Genetic variation of two strains (Scaled and Mirror) of six hatchery populations of common carp (Cyprinus carpio) was studied using three microsatellite loci (MFW13, MFW17 and MFW28). The loci were amplified by Polymerase Chain Reaction (PCR). The PCR products were electrophoresed on 6% polyacrylamide gel and the alleles were visualized by silver nitrate staining. All the three loci were found polymorphic. The average number of alleles was the highest in the population *SC-SMK (5.00) and lowest in **MC-SMK (4.00). Total number of null allele was more in mirror carp populations (6) than scaled carp populations (4). The average observed heterozygosity (Ho) ranged from 0.54 to 0.67. The average observed heterozygosity (Ho) was lower than the average expected heterozygosity (He) in case of all the populations. The population ***SC-BCH had high level of genetic variation in comparison to other five populations because this population had negative 1-Ho/He values in case of two loci out of three analyzed. The rest five populations had negative 1-Ho/He values only in one locus. In 6 of a total of 18 tests, significant deviations from Hardy-Weinberg expectations (HWE) were detected. Pairwise Fst values were used to detect the genetic distance between the pairs of populations. The Fst value was highest (o.153) between the population MC-AFF and MC-SMK. Nei's genetic distance value was also highest (0.462) between these populations. The Fst value of 0.153 represents a high level of population differentiation. The lowest Fst value (0.001) was found between SC-SMK and MC-SMK. This value was statistically insignificant.
International Journal of Life Sciences, 2015
The level of genetic variation determines the genetic status and provides the raw material for selective improvement of a stock. Randomly amplified polymorphic DNA (RAPD) technique was used to assess the genetic variability of 7 different natural (2) and hatchery (5) populations of Indian Major Carp, Labeo rohita (Rohu) in Bangladsh. In total, 140 fish samples were collected (20 from each of the populations). Genomic DNA was extracted from the muscle tissue, and 5 different oligonucleotide primers were used which revealed 80% polymorphic DNA bands. The polymorphic loci proportions were 0.71, 0.75, 0.75, 0.85, 0.84, 0.86 and 0.89 for Ma-Fatema hatchery, Chowdhuri hatchery, Niribili hatchery, Sonali hatchery, Kapotakha hatchery, the Halda river and the Baluhor Baor populations respectively. The pair-wise population differentiation (FST) values indicated a high level of genetic variation between different populations. The Unweighted Pair Group Method of Arithmetic Mean (UPGMA) dendogra...
Genetika
Badis badis is a threatened freshwater fish in the Indian scenario, and the population genetic architecture of this fish is largely unexplored in the eastern sub-Himalayan biodiversity hotspot of West Bengal, India, also known as the Terai and the Dooars. Total seventeen populations from three major river systems viz. Mahananda (Terai), Teesta and Jaldhaka (Dooars) have been studied through RAPD and ISSR fingerprinting. The polymorphism, genetic diversity and Shannon's Information index were calculated for each population. The highest values for Nei's genetic diversity (0.1436± 0.1963 and 0.1409 ±0.1954 after RAPD and ISSR analyses) and Shannon's information index (0.2150±0.2794 and 0.2109 ±0.2785 after RAPD and ISSR analyses) were found in Jaldhaka river system. The UPGMA dendrogram revealed that the Mahananda and Teesta populations form a single group and the Jaldhaka population forms a separate group. Comparing with other related studies the genetic diversity Badis badis was found to be low in the three main riverine systems of the Terai and Dooars region of West Bengal, although the Jaldhaka population showed a comparatively higher level of genetic diversity. Therefore, Jaldhaka population should be managed and, conserved to preserve the available gene pool of this threatened species in this region. Low levels of genetic diversity were found in the present study among the seventeen populations validating the recent assignment of its threatened status.
Rendiconti lincei. Scienze fisiche e naturali, 2016
The knowledge of molecular genetics is a key to understand biodiversity, evolutionary relationship, conservation programs, and genetic structure of species of an ecosystem. To study genetic polymorphism in morphological variants of five species of Indus River carps, namely, Labeo gonius, Labeo rohita, Labeo calbasu, Catla catla, and Cirrhinus mrigala, random amplified polymorphic DNA (RAPD) analysis was used. Using eight primers, a total of 719 loci were amplified comprising of 389 polymorphic loci (53.7%) and 330 monomorphic loci (45.3%). The mean value of observed number of alleles (na), effective number of alleles (ne), Nei gene diversity (h), and Shannon's information index were 2, 1.65, 0.38, and 0.56, respectively. The mean value of Nei total gene diversity (Ht), gene diversity within the population (Hs), relative magnitude of differentiation among population (Gst), and gene flow (Nm) were 0.38, 0.26, 0.28, and 3.98, respectively. The mean value of Hs and Gst suggests moderate gene flow between these fish populations. This study revealed that C. catla is more close to L. gonius, L. rohita, and L. calbasu than C. mrigala. We have presented the first detailed study of genetic variation within and among five fish species of Indus River carps in Pakistan.