Analysis of genetic variation in grass carp (Ctenopharyngodon idellus) from native and colonized regions using ISSR markers

Qin, Chen; Wang, Cheng Hui; Lu, Guoqing; Song, Xian‐Rong; Xu, Jinling; Yang, Qin; Li, Si Fa

doi:10.1016/j.bse.2009.08.002

Cited by 17 publications

(6 citation statements)

References 20 publications

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“…This result suggests that the genetic diversity in populations of C. microphylla was not significantly affected by single climatic factors and population size changes in northern China. These observations are similar to those of other studies that examine relationships between populations in species with large distribution areas (Díaz, Salomon & von Bothmer, ; Qiu et al ., ; Chen et al ., ). The genetic diversity indices were highest when CI was 60–80 °C and N a and p were significantly higher than in populations at < 60 °C.…”

Section: Discussionmentioning

confidence: 97%

Environmental determinants of genetic diversity inCaragana microphylla(Fabaceae) in northern China

et al. 2016

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The sand‐fixing shrub Caragana microphylla (Fabaceae) is extensively used for vegetation restoration in areas of northern China undergoing desertification. Although the understanding of its genetic variation and related determinants is an important component of plant conservation and ecological restoration in the face of a changing global environment, the relationship between genetic diversity in C. microphylla and climatic factors is unknown. In this study, we assessed population genetic variation in C. microphylla along temperature and humidity gradients in northern China using inter‐simple sequence repeat (ISSR) markers. In general, high levels of genetic diversity were uncovered in the 13 populations studied. The number of polymorphic loci ranged from 14 to 63 and polymorphism percentages ranged from 8.75 to 39.38%. Observed and effective allele numbers were 1.09–1.40 and 1.06–1.30, respectively. Nei's genetic diversity index (h) was calculated as 0.0340–0.1663 and Shannon's diversity index (I) was 0.0502–0.2403. At the species level, h and I were 0.2579 and 0.3965, respectively. Populations from low hydrothermal level areas, experiencing severe desertification and habitat fragmentation, exhibited the greatest genetic diversity. Genetic diversity in C. microphylla was positively correlated with annual temperature range, cold index, mean annual rainfall and hydrothermal synthesis index, whereas a negative association was found with mean annual temperature. Using redundancy analysis, we found that mean annual rainfall and cold index explained 87.8% of observed genetic variation, suggesting that genetic diversity in C. microphylla depends primarily on these two factors. Our data are relevant to the restoration and management of degraded ecosystems in arid and semiarid regions.

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Section: Discussionmentioning

confidence: 97%

Environmental determinants of genetic diversity inCaragana microphylla(Fabaceae) in northern China

et al. 2016

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“…in grass carp (Chen et al, 2009); P10 showed better cross-species amplification than the others. The Nei's Fstatistics and Shannon's information index values obtained due to P10 were comparable to the values obtained due to the primers P4, P5, P6, P7, P8 and P9 (Table 6) that were designed and slightly modified by us Government of India for the financial support to establish the Bioinformatics Infrastructure Facility (BIF).…”

mentioning

confidence: 82%

“…Primers P4 to P9 were based on turtle microsatellites reported by Aggarwal et al (2004), Edwards et al (2003) and Schwartz et al (2003), with some modifications. Primers P1, P2, P3 and P10 were designed and used by Chen et al (2009) in grass carp. PCRs were carried out in 20 μL of reaction volume containing 20 ng of genomic DNA, 1.0 U Taq polymerase, 200 μM dNTP, 1 μM primer, and 1X amplification buffer (containing 2 mM MgCl 2 ).…”

Section: Inter-simple Sequence Repeat-polymerase Chain Reaction (Issrmentioning

confidence: 99%

Inter-simple sequence repeat (ISSR) polymorphism-based analysis of diversity in the freshwater turtle genus Pangshura

Baruah¹,

Laskar²,

Sharma³

2013

Afr. J. Biotechnol.

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Assessment of genetic variability among the freshwater turtles is critical to the development of effective conservation strategies. In the present study, analysis of phenetic relationship of the genus Pangshura was studied using inter simple sequence repeat (ISSR) markers to see the concordance of currently available morphological data with genetic data along with spatial pattern of distribution. Ten microsatellite-based primers amplified 156 ISSR markers among 36 individuals belonging to four turtle species Pangshura sylhetensis, Pangshura tecta, Pangshura simithii and Pangshura tentoria, collected from certain localities of Assam, West Bengal and Uttar Pradesh of India. Estimations of Nei's genetic diversity (h), Shannon's Index (I) and Total genetic diversity (H t) reveal the existence of greater genetic diversity in P. tentoria and P. sylhetensis than in the other two species. However, low values of gene flow (Nm) and of within sample diversity (H s) indicate prevalence of inbreeding in these species groups. The coefficients of differentiation (GST) values divulge that divergence started in the Pangshura species. Projections on the principal components analysis (PCA) plot reflect the distinct genetic identity of these four species. The consensus Neighbour Joining dendogram depicts P. sylhetensis, P. tecta, and P. tentoria as genetically closer to each other than to P. smithii.

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“…ISSR is a multi-locus marker and highly polymorphic in nature (MALTAGLIATI et al, 2006;LI et al, 2013). Thus, ISSR-PCR technique was preferred over to other dominant markers by several groups of researchers in studying genetic diversity at the interspecific and intraspecific levels (CHEN et al, 2009;PANARARI-ANTUNES et al, 2011;SAAD et al, 2012;HANIFFA et al, 2014;LABASTIDA et al, 2015). Therefore, due to the unavailability of microsatellite or SNP markers in Badis badis till date, we resorted to the time-tested RAPD and ISSR primers to ascertain and compare the available genetic variations in this ichthyofauna.…”

Section: Introductionmentioning

confidence: 99%

Analyses of genetic diversity of Badis badis (Hamilton-Buchanan 1822) from three Riverine systems in sub-Himalayan biodiversity hotspot of west Bengal, India using RAPD and ISSR fingerprinting

Mukhopadhyay¹,

Bhattacharjee²

2018

Genetika

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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.

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Analysis of genetic variation in grass carp (Ctenopharyngodon idellus) from native and colonized regions using ISSR markers

Cited by 17 publications

References 20 publications

Environmental determinants of genetic diversity inCaragana microphylla(Fabaceae) in northern China

Environmental determinants of genetic diversity inCaragana microphylla(Fabaceae) in northern China

Inter-simple sequence repeat (ISSR) polymorphism-based analysis of diversity in the freshwater turtle genus Pangshura

Analyses of genetic diversity of Badis badis (Hamilton-Buchanan 1822) from three Riverine systems in sub-Himalayan biodiversity hotspot of west Bengal, India using RAPD and ISSR fingerprinting

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