@article{Lisachov2023,

title = {Emerging importance of bighead catfish (Clarias macrocephalus) and north African catfish (C. gariepinus) as a bioresource and their genomic perspective},

author = {A. Lisachov and D. H. M. Nguyen and T. Panthum and S. F. Ahmad and W. Singchat and J. Ponjarat and K. Jaisamut and P. Srisapoome and P. Duengkae and S. Hatachote and K. Sriphairoj and N. Muangmai and S. Unajak and K. Han and U. Na-Nakorn and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85153387018&doi=10.1016%2fj.aquaculture.2023.739585&partnerID=40&md5=5a3ce76de1bee0fe3127e6eba8d05248},

doi = {10.1016/j.aquaculture.2023.739585},

issn = {00448486},

year  = {2023},

date = {2023-01-01},

journal = {Aquaculture},

volume = {573},

publisher = {Elsevier B.V.},

note = {cited By 0},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Duengkae2022,

title = {Coincidence of low genetic diversity and increasing population size in wild gaur populations in the Khao Phaeng Ma Non- Hunting Area, Thailand: A challenge for conservation management under humanwildlife conflict},

author = {P. Duengkae and N. Ariyaraphong and W. Tipkantha and W. Jairak and S. Baicharoen and D. H. M. Nguyen and O. Korboon and W. Singchat and T. Panthum and S. F. Ahmad and E. Kaewkhunjob and C. Chaisonkhram and U. Maikaew and N. Muangmai and G. Ieamsaard and S. Sripiboon and P. Paansri and W. Suksavate and A. Chaiyes and S. Winitpornsawan and U. Prayoon and T. Sornsa and R. Chokcharoen and A. Buanual and B. Siriaroonrat and Y. Utara and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85137125631&doi=10.1371%2fjournal.pone.0273731&partnerID=40&md5=de7e0531452fda78ec82d7dded7c2cdc},

doi = {10.1371/journal.pone.0273731},

issn = {19326203},

year  = {2022},

date = {2022-01-01},

journal = {PLoS ONE},

volume = {17},

number = {8 August},

publisher = {Public Library of Science},

abstract = {The gaur (Bos gaurus) is found throughout mainland South and Southeast Asia but is listed as an endangered species in Thailand with a decreasing population size and a reduction in suitable habitat. While gaur have shown a population recovery from 35 to 300 individuals within 30 years in the Khao Phaeng Ma (KPM) Non-Hunting Area, this has caused conflict with villagers along the border of the protected area. At the same time, the ecotourism potential of watching gaurs has boosted the local economy. In this study, 13 mitochondrial displacement-loop sequence samples taken from gaur with GPS collars were analyzed. Three haplotypes identified in the population were defined by only two parsimony informative sites (from 9 mutational steps of nucleotide difference). One haplotype was shared among eleven individuals located in different subpopulations/herds, suggesting very low genetic diversity with few maternal lineages in the founder population. Based on the current small number of sequences, neutrality and demographic expansion test results also showed that the population was likely to contract in the near future. These findings provide insight into the genetic diversity and demography of the wild gaur population in the KPM protected area that can inform long-term sustainable management action plans. © 2022 Duengkae et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.},

note = {cited By 1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Suntronpong2022,

title = {Implications of genome-wide single nucleotide polymorphisms in jade perch (Scortum barcoo) reveals the putative XX/XY sex-determination system, facilitating a new chapter of sex control in aquaculture},

author = {A. Suntronpong and T. Panthum and N. Laopichienpong and D. H. M. Nguyen and E. Kraichak and W. Singchat and N. Ariyaraphong and S. F. Ahmad and N. Muangmai and P. Duengkae and S. Peyachoknagul and T. Ezaz and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85117398752&doi=10.1016%2fj.aquaculture.2021.737587&partnerID=40&md5=d8ceaa9e3927c765629f3b8e844c9509},

doi = {10.1016/j.aquaculture.2021.737587},

issn = {00448486},

year  = {2022},

date = {2022-01-01},

journal = {Aquaculture},

volume = {548},

publisher = {Elsevier B.V.},

abstract = {Jade perch (Scortum barcoo) is a new teleost in the developing aquaculture freshwater finfish grow-out sector in Australia and China. However, key information on the breeding sex determination system (SDS) remains poorly understood, hampering sex control programs and genetic improvement. In this study, the jade perch SDS was examined by investigating genome-wide single-nucleotide polymorphisms (SNPs) using diversity arrays technology and cytogenetics analysis to identify the genomic variants associated with sex-linked regions. Although the cytogenetic results showed no variation in the chromosomal patterns between males and females, one male-specific locus and 13 male-linked loci were observed, suggesting that jade perch exhibits male heterogametic XX/XY SDS. Male-specific loci on the putative Y sex chromosome were also identified as an extremely small proportion of the genome. A homology search of the SNP loci revealed the male-specific loci were homologous to the Gypsy transposable element. This might be a remnant of an initial accumulation of repeats on the Y chromosome at the early stage of sex chromosome differentiation. The results provide a base for sex control breeding biotechnologies and genetic improvements to promote sexual size dimorphism and other new approaches to improve the commercial value of jade perch. © 2021},

note = {cited By 3},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Nguyen2022,

title = {Genome-Wide SNP Analysis of Hybrid Clariid Fish Reflects the Existence of Polygenic Sex-Determination in the Lineage},

author = {D. H. M. Nguyen and J. Ponjarat and N. Laopichienpong and T. Panthum and W. Singchat and S. F. Ahmad and E. Kraichak and N. Muangmai and P. Duengkae and S. Peyachoknagul and U. Na-Nakorn and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85124894854&doi=10.3389%2ffgene.2022.789573&partnerID=40&md5=c78b59b7aeedf1a243e832ac3c27b858},

doi = {10.3389/fgene.2022.789573},

issn = {16648021},

year  = {2022},

date = {2022-01-01},

journal = {Frontiers in Genetics},

volume = {13},

publisher = {Frontiers Media S.A.},

abstract = {The African catfish (Clarias gariepinus) may exhibit the co-existence of XX/XY and ZZ/ZW sex-determination systems (SDSs). However, the SDS of African catfish might be influenced by a polygenic sex-determination (PSD) system, comprising multiple independently segregating sex “switch” loci to determine sex within a species. Here, we aimed to detect the existence of PSD using hybrid. The hybrid produced by crossing male African catfish with female bighead catfish (C. macrocephalus, XX/XY) is a good animal model to study SDSs. Determining the SDS of hybrid catfish can help in understanding the interactions between these two complex SDS systems. Using the genotyping-by-sequencing “DART-seq” approach, we detected seven moderately male-linked loci and seventeen female-linked loci across all the examined hybrid specimens. Most of these loci were not sex-linked in the parental species, suggesting that the hybrid exhibits a combination of different alleles. Annotation of the identified sex-linked loci revealed the presence of one female-linked locus homologous with the B4GALNT1 gene, which is involved in the spermatogenesis pathway and hatchability. However, this locus was not sex-linked in the parental species, and the African catfish might also exhibit PSD. Copyright © 2022 Nguyen, Ponjarat, Laopichienpong, Panthum, Singchat, Ahmad, Kraichak, Muangmai, Duengkae, Peyachoknagul, Na-Nakorn and Srikulnath.},

note = {cited By 4},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Nguyen2021b,

title = {An Investigation of ZZ/ZW and XX/XY Sex Determination Systems in North African Catfish (Clarias gariepinus, Burchell, 1822)},

author = {D. H. M. Nguyen and T. Panthum and J. Ponjarat and N. Laopichienpong and E. Kraichak and W. Singchat and S. F. Ahmad and N. Muangmai and S. Peyachoknagul and U. Na-Nakorn and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85099658568&doi=10.3389%2ffgene.2020.562856&partnerID=40&md5=9a346e1d25138630e1050f2dcad0e6a7},

doi = {10.3389/fgene.2020.562856},

year  = {2021},

date = {2021-01-01},

journal = {Frontiers in Genetics},

volume = {11},

abstract = {An investigation of sex-specific loci may provide important insights into fish sex determination strategies. This may be useful for biotechnological purposes, for example, to produce all-male or all-female fish for commercial breeding. The North African catfish species, Clarias gariepinus, has been widely adopted for aquaculture because its superior growth and disease resistance render the species suitable for hybridization with other catfish to improve the productivity and quality of fish meat. This species has either a ZZ/ZW or XX/XY sex determination system. Here, we investigate and characterize these systems using high-throughput genome complexity reduction sequencing as Diversity Arrays Technology. This approach was effective in identifying moderately sex-linked loci with both single-nucleotide polymorphisms (SNPs) and restriction fragment presence/absence (PA) markers in 30 perfectly sexed individuals of C. gariepinus. However, SNPs based markers were not found in this study. In total, 41 loci met the criteria for being moderately male-linked (with male vs. female ratios 80:20 and 70:30), while 25 loci were found to be moderately linked to female sex. No strictly male- or female-linked loci were detected. Seven moderately male-linked loci were partially homologous to some classes of transposable elements and three moderately male-linked loci were partially homologous to functional genes. Our data showed that the male heterogametic XX/XY sex determination system should co-exist with the ZZ/ZW system in C. gariepinus. Our finding of the co-existence of XX/XY and ZZ/ZW systems can be applied to benefit commercial breeding of this species in Thailand. This approach using moderately sex-linked loci provides a solid baseline for revealing sex determination mechanisms and identify potential sex determination regions in catfish, allowing further investigation of genetic improvements in breeding programs. © Copyright © 2021 Nguyen, Panthum, Ponjarat, Laopichienpong, Kraichak, Singchat, Ahmad, Muangmai, Peyachoknagul, Na-Nakorn and Srikulnath.},

note = {cited By 8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Nguyen2021,

title = {An Investigation of ZZ/ZW and XX/XY Sex Determination Systems in North African Catfish (Clarias gariepinus, Burchell, 1822)},

author = {D. H. M. Nguyen and T. Panthum and J. Ponjarat and N. Laopichienpong and E. Kraichak and W. Singchat and S. F. Ahmad and N. Muangmai and S. Peyachoknagul and U. Na-Nakorn and K. Srikulnath},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85099658568&doi=10.3389%2ffgene.2020.562856&partnerID=40&md5=9a346e1d25138630e1050f2dcad0e6a7},

doi = {10.3389/fgene.2020.562856},

issn = {16648021},

year  = {2021},

date = {2021-01-01},

journal = {Frontiers in Genetics},

volume = {11},

publisher = {Frontiers Media S.A.},

abstract = {Bighead catfish (Clarias macrocephalus, Günther, 1864) is an important aquacultural species that plays a crucial role in the economy of Southeast Asia. Crossbreeding between female bighead catfish and male African catfish (C. gariepinus, Burchell, 1822) is used to produce hybrids with vigorous phenotypes. However, sterility of the hybrid is a major obstacle to their mass production. There is an emerging hypothesis that the complexity of the sex-determination system between two parental species might affect sterility. Previous studies investigated the co-existence of XX/XY and ZZ/ZW sex-determination systems in the African catfish population in Thailand, but in bighead catfish the sex-determination system remains poorly understood. In this study, the sex-determination system of the bighead catfish was examined using Diversity Arrays Technology to identify the genomic variants associated with sex-linked regions. The results support the hypothesis of the previous study that the bighead catfish might exhibit a male heterogametic XX/XY sex-determination system with multiple male-linked loci. One of the male-linked loci showed homology with the GTSF1L gene, which shows a testis-enriched expression pattern. Two of the male-linked loci were partially homologous to transposable element. Male-linked loci on the putative Y sex chromosome were identified as an extremely small proportion of the genome. A PCR-based DNA marker was developed to validate the male-linked loci in the bighead catfish. Our findings provide novel insights into sex-determination mechanisms in clariid catfish and will contribute to genetic improvements in breeding programs. © 2021 Elsevier B.V.},

note = {cited By 15},

keywords = {},

pubstate = {published},

tppubtype = {article}

}