Genetic characterization of northern snakehead (Channa argus) populations in China using microsatellite markers

Zhuo, Xiaolei; Liang, Risheng; Chen, Yanfeng; Huang, Guiju; Yu, Dahui; Zou, Jixing

doi:10.1016/j.bse.2012.02.024

Cited by 14 publications

(6 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Populations GJ and MDJ showed the lowest genetic identity and their genetic relationship was the farthest. The population structure of freshwater organisms is primarily dependent on the distribution of river systems, as previously reported (Nagarajan et al, 2006;Zhuo et al, 2012). Genetic differentiation is primarily dependent on geographical isolation.…”

Section: Discussionmentioning

confidence: 62%

See 1 more Smart Citation

New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis

Tian¹,

Liang²,

Mu³

et al. 2014

Genet. Mol. Res.

View full text Add to dashboard Cite

ABSTRACT. The mandarin fish is a popular fresh water food fish in China. Fifty-three polymorphic microsatellite markers were isolated through construction of an enriched library of genomic DNA of Siniperca chuatsi (Percichthyidae). We found 2 to 7 alleles per locus. The observed and expected heterozygosity values varied from 0.059 to 1.000 and from 0.305 to 0.818, respectively. The polymorphic information content value varied from 0.255 to 0.782. Twelve microsatellite loci deviated significantly from Hardy -Weinberg equilibrium after Bonferroni's correction. These markers were evaluated in five species of sinipercine fish; 98% of the 265 locus/taxon combinations tested gave crossamplification. Eight polymorphic microsatellite markers were randomly selected for genetic characterization of three S. chuatsi populations. The Ganjiang River and Yuanjiang River populations had moderate levels of genetic diversity, while the Mudanjiang River population had a relatively low level genetic diversity. Genetic distance-based cluster analysis showed clustering of the Ganjiang River and Yuanjiang River Microsatellite markers and mandarin fish genetic diversity populations in a single group and the Mudanjiang River population in a separate group. Based on these results, we suggest that S. chuatsi from the Yangtze River watershed are distinct from the Mudanjiang River population. These SSR markers will be useful for diversity, mapping and marker assisted studies of S. chuatsi and other sinipercine fishes.

show abstract

Section: Discussionmentioning

confidence: 62%

“…There were 15 private alleles found in three populations (data not shown). These private alleles could be used as population-specific markers for selection of a candidate stock in controlled breeding programs, even though more samples from each population would be needed to confirm these results Zhuo et al, 2012).…”

Section: Discussionmentioning

confidence: 96%

New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis

Tian¹,

Liang²,

Mu³

et al. 2014

Genet. Mol. Res.

View full text Add to dashboard Cite

show abstract

“…Thus, allele number is usually positively associated with the sample size (Goldstein and Schlotterer, 1999). Compared with the wild snakehead populations (Zhuo et al, 2012), the average H E in these four cultured populations varied from 0.70 to 0.84 while the average H E in those eight wild populations ranged from 0.70 to 0.85. Compared with other freshwater species (DeWoody and Avise, 2000), it indicated that C. argus has high allelic diversity.…”

Section: Discussionmentioning

confidence: 83%

“…In the present study, eight wild northern snakehead populations were analyzed using five microsatellite loci (Zhuo et al, 2012). Here, we report the isolation and characterization of five polymorphic microsatellite loci from the C. argus genome and one microsatellite locus from the C. maculate genome, and investigation of spatial genetic structure, interpopulation diversity and population genetic differentiation of four cultured C. argus populations, which will provide additional insight and help to facilitate the selective breeding of C. argus populations.…”

Section: Introductionmentioning

confidence: 97%

Genetic diversity based on SSR analysis of the cultured snakehead fish, Channa argus, (Channidae) in China

Zhu¹,

Li²,

Xie³

et al. 2014

Genet. Mol. Res.

View full text Add to dashboard Cite

ABSTRACT. The snakehead fish Channa argus is an important food fish in China. We identified six microsatellite loci for C. argus. These six microsatellite loci and four other microsatellite markers were used to analyze genetic diversity in four cultured populations of C. argus (SD, JX, HN, and ZJ) and determine their relationships. A total of 154 alleles were detected at the 10 microsatellite loci. The average expected and observed heterozygosities varied from 0.70-0.84 and 0.69-0.83, respectively, and polymorphism information content ranged between 0.66 and 0.82 in the four populations, indicating high genetic diversity. Population JX deviated from mutation-drift equilibrium and may have experienced a recent bottleneck. Analysis of pairwise genetic differentiation revealed F ST values that ranged from 0.028 to 0.100, which indicates a moderate level of genetic differentiation. The largest distances were observed 8047 Genetic variations of cultured Channa argus©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 13 (3): 8046-8054 (2014) between populations HN and SD, whereas the smallest distances were obtained between populations HN and JX. Genetic clustering analysis demonstrated that the ZJ and HN populations probably share the same origin. This information about the genetic diversity within each of the four populations, and their genetic relationships will be useful for future genetic improvement of C. argus through selective breeding.

show abstract

“…Snakehead ( Channa argus ), a freshwater fish of the Channidae family, is an economically important freshwater fish native to East Asia. It is regarded as valuable fish because of its high protein content, significant anti-hypoxia capacity and even curative function in traditional Chinese medicine [ 24 ]. Total production of snakeheads reached 510,340 tonnes in 2014, ranking ninth in the production of all freshwater fish species in China [ 25 ].…”

Section: Introductionmentioning

confidence: 99%

An NGS-based approach for the identification of sex-specific markers in snakehead (Channa argus)

Cheng

Luo

et al. 2017

Oncotarget

View full text Add to dashboard Cite

We described a next generation sequencing (NGS)-based approach to identify sex-specific markers and subsequently determine whether a species has male or female heterogamety. To test the accuracy of this technique, we examined the snakehead (Channa argus), which is economically important freshwater fish in China. Males grow faster than females, and there is significant interest in developing methods to skew breeding towards all-males to increase biomass yields. NGS was conducted on DNAs of individual female and male, the male reads were spitted into 60 bp K-mers and aligned to the female reference genome assembled by female reads, unaligned male K-mers-60 were kept in next filter process. Meanwhile, DNA sample of 48 females was pooled and sequenced, this data was further used to filter out the previous unaligned male K-mers-60. Hence, numbers of candidate Y chromosome-specific sequences were screened out, their sex-specificity were validated in wild snakeheads through PCR amplification. Finally, three Y chromosome-specific fragments (Contig-275834, Contig-359642, and Contig-418354) were identified, and specific primers were obtained to distinguish the sex of snakehead. Additionally, a pair of primers of Contig-275834 (275834X/Y-F and 275834X/Y-R) was exploited to distinguish XX females, XY males, and YY super-males, whose amplification products of different lengths were produced for different sexes. Therefore, our work demonstrated the ability of NGS data in identification of sex-specific markers, and the pipeline adopted in our study could be applied in any species of sex differentiation. Furthermore, the sex-specific markers have tremendous potential for improving the efficiency of all-male breeding practices in snakehead.

show abstract

Genetic characterization of northern snakehead (Channa argus) populations in China using microsatellite markers

Cited by 14 publications

References 32 publications

New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis

New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis

Genetic diversity based on SSR analysis of the cultured snakehead fish, Channa argus, (Channidae) in China

An NGS-based approach for the identification of sex-specific markers in snakehead (Channa argus)

Contact Info

Product

Resources

About