Species composition in the Molobicus hybrid tilapia strain

Bartie, Kerry L.; Taslima, Khanam; Bekaert, Michaël; Wehner, Stefanie; Syaifudin, Mochamad; Taggart, John B.; Verdal, Hugues de; Rosario, Westly R.; Muyalde, Nerafe; Benzie, John A. H.; McAndrew, Brendan; Penman, David J.

doi:10.1016/j.aquaculture.2020.735433

Cited by 14 publications

(12 citation statements)

References 43 publications

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“… Genetic origins of Oreochromis niloticus in sampled core populations: 1 Bartie et al ( 2020 ), 2 Eknath et al ( 1993 ), 3 Ordoñez et al ( 2014 ), 4 Ponzoni et al ( 2010 ), 5 Pullin ( 1988 ), 6 Rezk et al ( 2002 ), 7 Rodriguez ( 2006 ), 8 Scott et al ( 1989 ), 9 Tayamen et al ( 2002 ), 10 Tayamen et al ( 2004 ), 11 Tayamen ( 2004 ), 12 Bureau of Fisheries and Aquatic Resources National Integrated Fisheries Technology Development Center, 13 Center de Cooperation Internationale en Recherche Agronomique pour le Development, 14 Bureau of Fisheries and Aquatic Resources National Freshwater Fisheries Technology Center, 15 Freshwater Aquaculture Center Central Luzon State University, 16 University of the Philippines Visayas, 17 International Development Research Center. …”

Section: Methodsmentioning

confidence: 99%

Distinguishing Between Nile Tilapia Strains Using a Low-Density Single-Nucleotide Polymorphism Panel

et al. 2020

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Nile tilapia (Oreochromis niloticus) is among the most important finfish in aquaculture, particularly in Asia. Numerous genetically improved strains of Nile tilapia have been developed and disseminated through formal and informal channels to hatcheries, many of which operate at a relatively small scale in developing countries. The primary objective of this study was to assess the extent to which molecular genetic tools can identify different and interrelated strains of Nile tilapia in Bangladesh and the Philippines, two globally significant producers. A tool was developed using a low-density panel of single-nucleotide polymorphisms (SNPs), genotyping-by-sequencing and discriminant analysis of principal components (DAPC). When applied to 2,057 samples from 205 hatcheries in Bangladesh and the Philippines, for hatcheries where the hatchery-identified strain was one of the sampled core populations used to develop the tool, hatchery-identified and DAPC-assigned hatchery-level strains were in agreement in 74.1% of cases in Bangladesh and 80.6% of cases in the Philippines. The dominant hatchery-identified and DAPC-assigned strains were GIFT, in Bangladesh, and GET-ExCEL—a composite strain partially derived from GIFT—in the Philippines.

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Section: Methodsmentioning

confidence: 99%

Distinguishing Between Nile Tilapia Strains Using a Low-Density Single-Nucleotide Polymorphism Panel

et al. 2020

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“…These results showed that the pipeline is capable of confidently recognising the ancestry of admixed individuals, as the hybrids analysed were indeed descendants of O. niloticus . Fish from the GIFT breeding programme have already been shown as having a small contribution from O. mossambisus genome and O. aureus 28 – 30 . The actual extent depends on the methodology used, but it ranges from 1 to 7% for O. mossambisus and 0.5% to 3% for O. aureus .…”

Section: Discussionmentioning

confidence: 99%

“…Purified DNA was extracted by a modified salt precipitation method 30 . Small pieces of fin tissue were digested in 300 μL SSTNE lysis solution (0.3 M NaCl, 50 mM Tris base, 0.2 mM EDTA pH 8.0, 0.2 mM EGTA, 0.5 mM spermidine, 0.25 mM spermine and 0.1% SDS) containing 1.5 μL Proteinase K (10 mg/mL) at 55 °C overnight.…”

Section: Methodsmentioning

confidence: 99%

Local ancestry inference provides insight into Tilapia breeding programmes

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Bartie

Selly

et al. 2020

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Tilapia is one of the most commercially valuable species in aquaculture with over 5 million tonnes of Nile tilapia, Oreochromis niloticus, produced worldwide every year. It has become increasingly important to keep track of the inheritance of the selected traits under continuous improvement (e.g. growth rate, size at maturity or genetic gender), as selective breeding has also resulted in genes that can hitchhike as part of the process. The goal of this study was to generate a Local Ancestry Interence workflow that harnessed existing tilapia genotyping-by-sequencing studies, such as Double Digest RAD-seq derived Single-Nucleotide Polymorphism markers. We developed a workflow and implemented a suite of tools to resolve the local ancestry of each chromosomal locus based on reference panels of tilapia species of known origin. We used tilapia species, wild populations and breeding programmes to validate our methods. The precision of the pipeline was evaluated on the basis of its ability to identify the genetic makeup of samples of known ancestry. The easy and inexpensive application of local ancestry inference in breeding programmes will facilitate the monitoring of the genetic profile of individuals of interest, the tracking of the movement of genes from parents to offspring and the detection of hybrids and their origin.

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“…This process was repeated to give three independent transposon insertion mutant libraries. Finally, duplicate 0.5-mL aliquots of each library were cultured in 5 mL TSB 15 + KAN 250 + STR 100 (22℃, 150 rpm, 3 h) before genomic DNA from 3 mL of each of the six cultures was extracted according to Bartie et al ( 2020 ).…”

Section: Methodsmentioning

confidence: 99%

Essential Genes of Vibrio anguillarum and Other Vibrio spp. Guide the Development of New Drugs and Vaccines

et al. 2021

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Essential genes in bacterial pathogens are potential drug targets and vaccine candidates because disrupting their function is lethal. The development of new antibiotics, in addition to effective prevention measures such as vaccination, contributes to addressing the global problem of bacterial antibiotic resistance. The aim of this present study was to determine the essential genes of Vibrio anguillarum, a bacterial pathogen of aquatic animals, as a means to identify putative targets for novel drugs and to assist the prioritisation of potential vaccine candidates. Essential genes were characterised by a Tn-seq approach using the TnSC189 mariner transposon to construct a library of 52,662 insertion mutants. In total, 329 essential genes were identified, with 34.7% found within the core genome of this species; each of these genes represents a strong potential drug target. Seven essential gene products were predicted to reside in the cell membrane or be released extracellularly, thus serving as putative vaccine candidates. Comparison to essential gene data from five other studies of Vibrio species revealed 13 proteins to be conserved across the studies, while 25 genes were specific to V. anguillarum and not found to be essential in the other Vibrio spp. This study provides new information on the essential genes of Vibrio species and the methodology may be applied to other pathogens to guide the development of new drugs and vaccines, which will assist efforts to counter antibiotic resistance.

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Species composition in the Molobicus hybrid tilapia strain

Cited by 14 publications

References 43 publications

Distinguishing Between Nile Tilapia Strains Using a Low-Density Single-Nucleotide Polymorphism Panel

Distinguishing Between Nile Tilapia Strains Using a Low-Density Single-Nucleotide Polymorphism Panel

Local ancestry inference provides insight into Tilapia breeding programmes

Essential Genes of Vibrio anguillarum and Other Vibrio spp. Guide the Development of New Drugs and Vaccines

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