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  • 1
    Online Resource
    Online Resource
    Central Fisheries Research Institute (SUMAE) ; 2020
    In:  Turkish Journal of Fisheries and Aquatic Sciences Vol. 21, No. 01 ( 2020-11-12), p. 9-18
    In: Turkish Journal of Fisheries and Aquatic Sciences, Central Fisheries Research Institute (SUMAE), Vol. 21, No. 01 ( 2020-11-12), p. 9-18
    Abstract: Clarias magur, popularly known as magur, is one of the economically important catfish species having high aquaculture potential in India due to its efficient food conversion, taste, and nutritional benefits. Due to habitat degradation, over exploitation, lack of resources, indiscriminate use of agricultural pesticides and introduction of competitor exotic species, the wild populations are dwindling day by day. According to IUCN, it is listed as endangered species. In the present study, the population genetic structure of 206 magur samples collected from seven different geographical regions was examined using partial mitochondrial D-loop (control region) sequence variation. In total of 17 haplotypes were observed with high number of private alleles, number of haplotypes ranged from 2 to 6 and maximum number of haplotypes was observed in UP population. Haplotype diversity and nucleotide diversity ranged from 0.06897 to 0.76322 and 0.00019 to 0.00208, respectively. Pairwise FST values ranged from 0.01383 to 0.62069 and highest genetic differentiation was observed between AP and AS population. Low genetic diversity and significant population genetic differentiation was observed in the present study. The information generated in the present investigation would facilitate formulating appropriate strategy for management, conservation, and genetic improvement program of this commercially important aquaculture species.
    Type of Medium: Online Resource
    ISSN: 1303-2712
    Language: English
    Publisher: Central Fisheries Research Institute (SUMAE)
    Publication Date: 2020
    detail.hit.zdb_id: 2120864-5
    SSG: 21,3
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  • 2
    In: Mitochondrial DNA Part B, Informa UK Limited, Vol. 6, No. 2 ( 2021-02-01), p. 402-403
    Type of Medium: Online Resource
    ISSN: 2380-2359
    Language: English
    Publisher: Informa UK Limited
    Publication Date: 2021
    detail.hit.zdb_id: 2868557-X
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  • 3
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 14 ( 2023-5-9)
    Abstract: Labeo catla (catla) is the second most commercially important and widely cultured Indian major carp (IMC). It is indigenous to the Indo-Gangetic riverine system of India and the rivers of Bangladesh, Nepal, Myanmar, and Pakistan. Despite the availability of substantial genomic resources in this important species, detailed information on the genome-scale population structure using SNP markers is yet to be reported. In the present study, the identification of genome-wide single nucleotide polymorphisms (SNPs) and population genomics of catla was undertaken by re-sequencing six catla populations of riverine origin from distinct geographical regions. DNA isolated from 100 samples was used to perform genotyping-by-sequencing (GBS). A published catla genome with 95% genome coverage was used as the reference for mapping reads using BWA software. From a total of 472 million paired-end (150 × 2 bp) raw reads generated in this study, we identified 10,485 high-quality polymorphic SNPs using the STACKS pipeline. Expected heterozygosity (He) across the populations ranged from 0.162 to 0.20, whereas observed heterozygosity (Ho) ranged between 0.053 and 0.06. The nucleotide diversity (π) was the lowest (0.168) in the Ganga population. The within-population variation was found to be higher (95.32%) than the among-population (4.68%) variation. However, genetic differentiation was observed to be low to moderate, with F st values ranging from 0.020 to 0.084, and the highest between Brahmani and Krishna populations. Bayesian and multivariate techniques were used to further evaluate the population structure and supposed ancestry in the studied populations using the structure and discriminant analysis of principal components (DAPC), respectively. Both analyses revealed the existence of two separate genomic clusters. The maximum number of private alleles was observed in the Ganga population. The findings of this study will contribute to a deeper understanding of the population structure and genetic diversity of wild populations of catla for future research in fish population genomics.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2023
    detail.hit.zdb_id: 2606823-0
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  • 4
    Online Resource
    Online Resource
    Springer Science and Business Media LLC ; 2020
    In:  BMC Research Notes Vol. 13, No. 1 ( 2020-12)
    In: BMC Research Notes, Springer Science and Business Media LLC, Vol. 13, No. 1 ( 2020-12)
    Abstract: Labeo catla (catla), one of the three Indian major carps, is native to the Indo-Gangetic riverine system of India as well as the rivers of Pakistan, Bangladesh, Nepal and Myanmar. Its higher growth rate and compatibility with other major carps, specific surface feeding habit, and consumer preference have increased its popularity in carp polyculture systems among the fish farmers in Indian subcontinent. Recent advancement in sequencing technology coupled with massive parallel sequencing platforms has facilitated accelerated genetic improvement in aquaculture species through integration of genomics tools. A draft genome and allied resources are lacking in catla. Therefore, in the present study, we have performed de-novo assembly of Labeo catla for the first time. Data description A male farm reared catla was used for extracting high molecular weight genomic DNA followed by sequencing in Oxford Nanopore and Illumina platforms. Approximately, 80× coverage of sequence data was assembled adopting the hybrid assembly strategy. The assembled genome size of catla was 1.01 Gb containing 5345 scaffolds with N50 value 0.7 Mb and more than 92% BUSCO completeness. Gene annotation resulted in 25,812 predicted genes.
    Type of Medium: Online Resource
    ISSN: 1756-0500
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2020
    detail.hit.zdb_id: 2413336-X
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