ArticleMolecules (Basel, Switzerland)2014
Characterization and development of EST-SSR markers derived from transcriptome of yellow catfish.
Article in Molecules (Basel, Switzerland), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 46 citations in OpenAlex.
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- De Novo Transcriptomic Characterization Enables Novel Microsatellite Identification and Marker Development inLife (Basel, Switzerland) · 2021Article
- Transcriptome Profiling Reveals the Sexual Dimorphism of Gene Expression Patterns during Gonad Differentiation in the Half-Smooth Tongue Sole (Cynoglossus semilaevis).Marine biotechnology (New York, N.Y.) · 2021Article
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- Identification of Functional SSR Markers in Freshwater Ornamental Shrimps Neocaridina denticulata Using Transcriptome Sequencing.Marine biotechnology (New York, N.Y.) · 2020Article
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- The complete mitochondrial genome sequence ofZooKeys · 2020Article
- Discovery of novel genic-SSR markers from transcriptome dataset of an important non-human primate, Macaca fascicularis.Scientific reports · 2019Article
- Chromosomal-level assembly of yellow catfish genome using third-generation DNA sequencing and Hi-C analysis.GigaScience · 2018Article
- Isolation and characterization of 20 novel polymorphic microsatellite markers for Pseudobagrus ussuriensis.Journal of genetics · 2017Article
- Identification of Sex-Specific Markers Reveals Male Heterogametic Sex Determination in Pseudobagrus ussuriensis.Marine biotechnology (New York, N.Y.) · 2015Article
- Development and Characterization of Novel EST-SSRs from Larix gmelinii and Their Cross-Species Transferability.Molecules (Basel, Switzerland) · 2015Article
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Authors and funding
6 authors at 2 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Yellow catfish (Pelteobagrus fulvidraco) is one of the most important freshwater fish due to its delicious flesh and high nutritional value. However, lack of sufficient simple sequence repeat (SSR) markers has hampered the progress of genetic selection breeding and molecular research for yellow catfish. To this end, we aimed to develop and characterize polymorphic expressed sequence tag (EST)-SSRs from the 454 pyrosequencing transcriptome of yellow catfish. Totally, 82,794 potential EST-SSR markers were identified and distributed in the coding and non-coding regions. Di-nucleotide (53,933) is the most abundant motif type, and AC/GT, AAT/ATT, AAAT/ATTT are respective the most frequent di-, tri-, tetra-nucleotide repeats. We designed primer pairs for all of the identified EST-SSRs and randomly selected 300 of these pairs for further validation. Finally, 263 primer pairs were successfully amplified and 57 primer pairs were found to be consistently polymorphic when four populations of 48 individuals were tested. The number of alleles for the 57 loci ranged from 2 to 17, with an average of 8.23. The observed heterozygosity (HO), expected heterozygosity (HE), polymorphism information content (PIC) and fixation index (fis) values ranged from 0.04 to 1.00, 0.12 to 0.92, 0.12 to 0.91 and -0.83 to 0.93, respectively. These EST-SSR markers generated in this study could greatly facilitate future studies of genetic diversity and molecular breeding in yellow catfish.
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