Article
Evolutionary Biology
Agustin Barria, Carolina Penaloza, Athina Papadopoulou, Mahirah Mahmuddin, Andrea Doeschl-Wilson, John A. H. Benzie, Ross D. Houston, Pamela Wiener
Summary: This study used a whole-genome pooled sequencing (Poolseq) approach to investigate the genetic structure and selection signatures in Nile tilapia populations, with a focus on the GIFTw strain developed by WorldFish. The study also examined important farmed strains from The Philippines and Africa. The findings revealed genetic differentiation between Asian and African populations, as well as genomic regions associated with muscle-related traits and fillet yield.
EVOLUTIONARY APPLICATIONS
(2023)
Article
Fisheries
Haiyang Liu, Kunci Chen, Qing Luo, Mi Ou, Lan Liu, Dandan Gao, Yanduo Wu, Xinping Zhu, Jian Zhao
Summary: The high-density genetic linkage map for blotched snakehead was constructed and revealed genomic information for the aquaculture species. The map identified chromosome-wide QTLs for body weight and a sex-related chromosome with a potential XX/XY sex determination system. The results provide important insights for genome evolutionary studies, QTL fine mapping, and sex-control breeding in blotched snakehead.
Article
Biotechnology & Applied Microbiology
Ran Wang, Siyuan Xing, Peter M. M. Bourke, Xiuquan Qi, Miaomiao Lin, Danny Esselink, Paul Arens, Roeland E. E. Voorrips, Richard G. F. Visser, Leiming Sun, Yunpeng Zhong, Hong Gu, Yukuo Li, Sikai Li, Chris Maliepaard, Jinbao Fang
Summary: Kiwifruit is a woody, perennial and deciduous vine with multiple ploidy levels. Despite the availability of genomic resources, SNP genotyping is still challenging due to different levels of polyploidy. In this study, a high-density SNP genotyping array was developed and evaluated for genetic studies and breeding applications in kiwifruit.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Fisheries
Ronan Griot, Francois Allal, Florence Phocas, Sophie Brard-Fudulea, Romain Morvezen, Anastasia Bestin, Pierrick Haffray, Yoannah Francois, Thierry Morin, Charles Poncet, Alain Vergnet, Sophie Cariou, Joseph Brunier, Jean-Sebastien Bruant, Bruno Peyrou, Pierre-Alexandre Gagnaire, Marc Vandeputte
Summary: This study identified quantitative trait loci (QTL) involved in VNN resistance in European sea bass, with one QTL on chromosome LG12 showing a strong effect. The high-density SNP chip panel developed for genotyping individuals and performing QTL mapping could have a significant impact on the aquaculture industry. Future work focusing on fine mapping the causal mutation on LG12 using whole genome sequencing is recommended.
Article
Genetics & Heredity
Agustin Barria, John A. H. Benzie, Ross D. Houston, Dirk-Jan De Koning, Hugues de Verdal
Summary: This study investigated the genetic architecture of feed-efficiency traits in Nile tilapia breeding populations and demonstrated the potential of genomic selection to improve feed efficiency. By mapping genomic regions associated with these traits and identifying candidate genes, it was found that genomic prediction accuracy was significantly higher than using pedigree records, with a SNP density of approximately 5,000 SNPs being sufficient for accurate prediction.
FRONTIERS IN GENETICS
(2021)
Article
Genetics & Heredity
Cecile Triay, Maxime Courcelle, Pierre Caminade, Etienne Bezault, Jean-Francois Baroiller, Thomas D. Kocher, Helena D'Cotta
Summary: The sex-determining region in Nile tilapia has been found on linkage groups 1, 20, and 23. Previous studies have only focused on wild populations from Ghana and Ethiopia. In a wild population from Lake Hora, Ethiopia, no sex-determining region on linkage group 23 was found, and there was no duplication of the amh gene. The genetic basis of sex determination in this population remains unknown.
FRONTIERS IN GENETICS
(2022)
Article
Biotechnology & Applied Microbiology
Melissa L. M. MacLeod-Bigley, Elizabeth G. Boulding
Summary: We studied within-family recombination of three chromosome rearrangements in North American Atlantic salmon using a custom 50K SNP chip. The results showed that the translocation Ssa01p/23 was fixed except in one hybrid female map, while the fusion Ssa08/29 and Ssa26/28 were present in most maps. The orientation of Ssa08/29 differed from the previous map, and recombination suppression was observed at the fusion of Ssa08 to Ssa29 in female maps.
Article
Horticulture
Xingbo Wu, Amanda M. Hulse-Kemp, Phillip A. Wadl, Zach Smith, Keithanne Mockaitis, Margaret E. Staton, Timothy A. Rinehart, Lisa W. Alexander
Summary: Hydrangea, an important ornamental crop cultivated for over 300 years, has been limited in genetic studies due to lack of genetic resources. However, a recent transcriptomic study and large-scale marker development have greatly expanded the genetic resources available for hydrangea, including high-density genetic linkage maps.
Article
Biotechnology & Applied Microbiology
Qiaomu Hu, Yang Liu, Xiaolin Liao, Haifeng Tian, Xiangshan Ji, Jiajie Zhu, Hanbing Xiao
Summary: A high-density genetic linkage map of the Chinese giant salamander Andrias davidianus was constructed using ddRAD sequencing technology, revealing three sex-related loci. This map provides a valuable tool for future genomic studies and marker-assisted breeding efforts for this species.
Article
Fisheries
Khanam Taslima, Mohd G. Q. Khan, Brendan J. McAndrew, David J. Penman
Summary: Nile tilapia has been the focus of research on sex determination due to problems caused by maturation and reproduction before harvest, with multiple sex-determining loci identified in different populations. Understanding sex determination in this species is crucial for preventing unwanted reproduction in tilapia aquaculture.
Article
Biochemical Research Methods
Dat Thanh Nguyen, Quan Hoang Nguyen, Nguyen Thuy Duong, Nam S. Vo
Summary: Despite the advancement of sequencing technology, SNP arrays remain the most cost-effective genotyping solution for large-scale genomic research. This study introduces a novel method called LmTag for tag SNP selection, which improves imputation performance and prioritizes highly functional SNP markers. It is particularly suitable for under-represented populations and non-model species in developing countries.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Multidisciplinary Sciences
Marina Delphino, Rajesh Joshi, Alejandro Tola Alvarez
Summary: This study evaluates the economic value of using tilapia fingerlings resistant to Streptococcosis in aquaculture and finds that it is profitable in environments where Streptococcus infection is prevalent.
SCIENTIFIC REPORTS
(2022)
Article
Genetics & Heredity
Manish K. Pandey, Sunil S. Gangurde, Vinay Sharma, Santosh K. Pattanashetti, Gopalakrishna K. Naidu, Issa Faye, Falalou Hamidou, Haile Desmae, Ndjido Ardo Kane, Mei Yuan, Vincent Vadez, Shyam N. Nigam, Rajeev K. Varshney
Summary: Understanding the genetic control of drought and iron deficiency tolerance is crucial for developing improved crop varieties. A study identified major QTLs and candidate genes related to drought and iron deficiency tolerance in groundnut, which may be utilized for enhancing crop yield under stressful conditions.
Article
Biochemistry & Molecular Biology
Kate D. Lee, Craig D. Millar, Patricia Brekke, Annabel Whibley, John G. Ewen, Melanie Hingston, Amy Zhu, Anna W. Santure
Summary: Next-generation sequencing technology has revolutionized ecological and evolutionary genetics, enabling cost-effective identification of genome-wide variation. In this study, researchers developed a 50K SNP chip for the threatened species hihi by combining RAD-seq and WGS data, demonstrating its utility in identifying SNPs for genotyping and revealing high rates of linkage disequilibrium in the hihi genome, indicative of population bottleneck events.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Amanda de Moraes Narcizo, Tiago Gabriel Correia, Adalto Bianchini, Mario Gustavo Mayer, Ricardo Andrade Zampieri, Lucile Maria Floeter-Winter, Renata Guimaraes Moreira
Summary: This study revealed that aluminum and acidic pH can influence the bioconcentration of aluminum in Oreochromis niloticus females, with aluminum potentially acting as an endocrine disruptor directly affecting ovarian steroidogenesis.
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY C-TOXICOLOGY & PHARMACOLOGY
(2021)
Article
Psychology, Biological
Patricia I. M. Silva, Catarina I. M. Martins, Uniza W. Khan, Hans Magnus Gjoen, Oyvind Overli, Erik Hoglund
PHYSIOLOGY & BEHAVIOR
(2015)
Article
Multidisciplinary Sciences
C. R. Amundsen, J. T. Nordeide, H. M. Gjoen, B. Larsen, E. S. Egeland
Article
Ecology
R. Joshi, J. A. Woolliams, T. H. E. Meuwissen, H. M. Gjoen
Article
Biochemistry & Molecular Biology
Patricia I. M. Silva, Catarina I. M. Martins, Erik Hoglund, Hans Magnus Gjoen, Oyvind Overli
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2014)
Article
Biology
Matthew A. Conte, Rajesh Joshi, Emily C. Moore, Sri Pratima Nandamuri, William J. Gammerdinger, Reade B. Roberts, Karen L. Carleton, Sigbjorn Lien, Thomas D. Kocher
Article
Fisheries
R. Joshi, A. Skaarud, M. de Vera, A. T. Alvarez, J. Odegard
Review
Agriculture, Dairy & Animal Science
J. M. Yanez, R. Joshi, G. M. Yoshida
Article
Fisheries
Khoi Dinh Pham, Jorgen Odegard, Sang van Nguyen, Hans Magnus Gjoen, Gunnar Klemetsdal
Summary: The study found a weak genetic correlation between susceptibility to bacillary necrosis and growth and survival in Mekong striped catfish, as well as a moderate favorable genetic correlation between growth and survival. To continue challenge testing in Vietnam, a strong genetic relationship needs to be established between bacillary necrosis and survival under a natural disease outbreak, requiring another field test.
JOURNAL OF FISH DISEASES
(2021)
Article
Fisheries
Khoi Dinh Pham, Jorgen Odegard, Sang Van Nguyen, Hans Magnus Gjoen, Gunnar Klemetsdal
Summary: This study aimed to analyze four cohabitation challenge-test experiments with Mekong striped catfish against the bacterium E. ictaluri using genetic analysis, finding heritability estimates in two different cross-sectional models.
JOURNAL OF FISH DISEASES
(2021)
Article
Fisheries
Khoi Dinh Pham, Sang Van Nguyen, Jorgen Odegard, Hans Magnus Gjoen, Gunnar Klemetsdal
Summary: The challenge tests for bacillary necrosis in Mekong striped catfish suggested pre-acclimatization, cohabitant and bacteria addition methods. Results indicated that focus should be on bacteria density, timing of bacteria addition, and selecting genetic traits for resistance. Replicated tank tests showed consistent resistance trait in the same experiment.
JOURNAL OF FISH DISEASES
(2021)
Article
Agriculture, Dairy & Animal Science
Rajesh Joshi, Theo H. E. Meuwissen, John A. Woolliams, Hans M. Gjoen
GENETICS SELECTION EVOLUTION
(2020)
Article
Marine & Freshwater Biology
Xinxiu Yu, Changwen Wu, Hans Magnus Gjoen
INTERNATIONAL AQUATIC RESEARCH
(2017)