Article
Agriculture, Multidisciplinary
Tian Yu, Yang Lei, Lu Hong-feng, Zhang Bo, Li Yan-fei, Liu Chan, Ge Tian-li, Liu Yu-lin, Han Jia-nan, Li Ying-hui, Qiu Li Juan
Summary: By constructing a high-density genetic map, nine QTLs for plant height in soybean were identified, including three novel loci. Among them, two environmentally stable QTLs played a major role in plant height, explaining a significant proportion of phenotypic variance, and were fine-mapped to specific gene regions.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2022)
Article
Plant Sciences
Tomonori Hirao, Koji Matsunaga, Kenta Shirasawa
Summary: This study constructed a high-density linkage map using genotyping-by-sequencing (GBS) and identified a key locus for resistance to pine wilt disease (PWD) caused by the pine wood nematode (PWN) in Pinus thunbergii. The findings provide valuable genetic information for resistance breeding programs in P. thunbergii.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agronomy
Donglan Zhao, Shan Wu, Xibin Dai, Yijun Su, Songbao Dai, An Zhang, Zhilin Zhou, Jun Tang, Qinghe Cao
Summary: This study utilized diploid Ipomoea trifida as a model plant to investigate the molecular mechanisms underlying storage root development in sweetpotato. By genotyping an F1 mapping population derived from I. trifida, three significant QTL associated with root diameter were identified. These findings will aid in the map-based cloning of genes controlling storage root-related traits and further uncover the genetic basis of root development in sweetpotato.
GENETIC RESOURCES AND CROP EVOLUTION
(2021)
Article
Fisheries
Yu-Lin Zhou, Zhong-Wei Wang, Xin-Fen Guo, Jun-Jie Wu, Wei-Jia Lu, Li Zhou, Jian-Fang Gui
Summary: A high-density genetic linkage map of red-tail catfish was constructed using 2b-RAD sequencing technology, identifying QTLs and growth-related genes. Additionally, a sex-related QTL on LG20 and potential sex dimorphic genes were detected, providing important insights for future genetic studies and sex control breeding.
Article
Plant Sciences
Gurpreet Kaur, Mamta Pathak, Deepak Singla, Abhishek Sharma, Parveen Chhuneja, Navraj Kaur Sarao
Summary: Through hybridization to obtain the F-4 mapping population for genetic mapping of YMD resistance in bitter gourd, three QTLs associated with YMD resistance were identified on chromosomes 3, 4, and 5, providing valuable information for fine-mapping and marker-assisted selection for disease resistance in the future.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Bixuan Cheng, Huihua Wan, Yu Han, Chao Yu, Le Luo, Huitang Pan, Qixiang Zhang
Summary: The study identified 46 QTLs for pigments in roses, providing a foundation for marker-assisted breeding of flower colors in tetraploid roses.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Nayyer Abdollahi Sisi, Nils Stein, Axel Himmelbach, Seyed Abolghasem Mohammadi
Summary: In this study, a high-density linkage map was constructed using genotyping-by-sequencing technology, revealing 85 QTLs associated with drought tolerance traits in wheat, including 20 novel QTLs. These findings are of great importance for improving wheat yield and drought resistance.
Article
Plant Sciences
Ye-Rin Lee, Cheol Woo Kim, JiWon Han, Hyun Jin Choi, Koeun Han, Eun Su Lee, Do-Sun Kim, Jundae Lee, Muhammad Irfan Siddique, Hye-Eun Lee
Summary: Onion, a globally valuable vegetable crop, has a large genome and complex genetic characteristics. This study successfully constructed an onion genetic linkage map using GBS technology, identifying QTLs associated with sugar content across the genome, which will contribute to developing high sugar content cultivars.
Article
Plant Sciences
Kassa Semagn, Maria Antonia Henriquez, Muhammad Iqbal, Anita L. Brule-Babel, Klaus Strenzke, Izabela Ciechanowska, Alireza Navabi, Amidou N'Diaye, Curtis Pozniak, Dean Spaner
Summary: This study aimed to identify new sources of Fusarium head blight (FHB) resistance and map associated quantitative trait loci (QTLs) in Canadian spring wheat varieties. The researchers evaluated the reaction of 249 varieties to FHB in seven environments and genotyped 198 of them. They identified 16 FHB resistance QTLs that accounted for 5.7-10.2% of the phenotypic variance. Some of these QTLs overlapped with plant height and flowering time QTLs. The study also identified highly resistant and moderately resistant wheat lines and varieties that could benefit wheat breeders in western Canada.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agriculture, Multidisciplinary
Yu Chao, Wan Hui-hua, Peter M. Bourke, Cheng Bi-xuan, Luo Le, Pan Hui-tang, Zhang Qi-xiang
Summary: This study conducted genetic analysis using genome sequencing of tetraploid roses, successfully constructing a high-density genetic map and performing QTL analysis for petal number and flower diameter. The results will benefit molecular marker-assisted breeding of modern rose cultivars and provide a guide for genetic and QTL analysis of autotetraploid plants.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2021)
Article
Biotechnology & Applied Microbiology
Anthony J. Silva, Zhihui Yang, Julia Wolfe, Kirsten A. Hirneisen, Shannon B. Ruelle, Angelica Torres, Donna Williams-Hill, Michael Kulka, Rosalee S. Hellberg
Summary: This study compared the ability of whole-genome sequencing (WGS) and Sanger sequencing to differentiate norovirus strains, showing that WGS enables better genetic differentiation of strains and provides valuable information for outbreak investigation and surveillance efforts.
Article
Plant Sciences
Yifei Jiang, Huaiyong Luo, Bolun Yu, Yingbin Ding, Yanping Kang, Li Huang, Xiaojing Zhou, Nian Liu, Weigang Chen, Jianbin Guo, Dongxin Huai, Yong Lei, Huifang Jiang, Liying Yan, Boshou Liao
Summary: This study focused on mapping the quantitative trait locus (QTL) of resistance to A. flavus infection in the peanut variety J11. Six novel resistant QTLs were identified on chromosomes A05, A08, B01, B03, and B10, with phenotypic variances explained ranging from 5.03% to 10.87%. The combination of these QTLs significantly improved resistance to A. flavus infection, providing insights into the genetic basis of resistance and potential for further improvement in peanuts.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Agriculture, Multidisciplinary
Bapsila Loitongbam, Pawan Kumar Singh, Rameswar Prasad Sah, Om Prakash Verma, Balwant Singh, Prashant Bisen, Sandhya Kulhari, Sanket R. Rathi, Sameer Upadhyay, Nagendra Kumar Singh, Rabin Sahu, Rakesh Kumar Singh
Summary: This study identified promising QTLs for zinc deficiency tolerance in rice using biparental mapping. The newly identified QTLs and linked markers can be utilized in marker-assisted backcrossing for improving zinc deficiency tolerance in elite rice cultivars.
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
(2022)
Article
Genetics & Heredity
Megha Katoch, Rushikesh Sanjay Mane, Rakesh Kumar Chahota
Summary: Horsegram is an important legume that has been understudied in terms of genetic improvement. This study constructed a genetic linkage map and identified quantitative trait loci (QTLs) associated with various phenological and morphological traits, providing valuable genetic information for breeding purposes.
FRONTIERS IN GENETICS
(2022)
Article
Fisheries
Bing Chen, Ping Zhong, Xiaopeng Wu, Kai Peng, Yuping Sun, Xiaoying Chen, Hongxia Zhao, Zhongneng Xu, Jinshang Liu, Huo Li, Chaozheng Li, Wen Huang
Summary: The study successfully constructed a genetic map of Pacific white shrimp using new technologies and methods, identifying quantitative trait loci related to low-salinity tolerance and growth. Additionally, candidate genes related to growth and low-salinity adaptation were also identified.
AQUACULTURE REPORTS
(2022)
Article
Fisheries
Yvan Papa, Alexander G. Halliwell, Mark A. Morrison, Maren Wellenreuther, Peter A. Ritchie
Summary: The study investigated the genetic structure, genetic diversity, and demographic history of tarakihi fish in New Zealand, finding no clear genetic structure for the overall New Zealand area, indicating a panmictic genetic structure. The fish displayed high levels of genetic diversity and had experienced two population expansions likely due to repeated glacial cycles. Additionally, genetic differentiation was observed between two morphotypes of tarakihi fish, highlighting the importance of informed management for sustainable harvest.
NEW ZEALAND JOURNAL OF MARINE AND FRESHWATER RESEARCH
(2022)
Article
Evolutionary Biology
Noemie Valenza-Troubat, Elena Hilario, Sara Montanari, Peter Morrison-Whittle, David Ashton, Peter Ritchie, Maren Wellenreuther
Summary: The aquaculture industry is rapidly growing, but has been slow to implement genomic techniques. This study on captive-bred F-1 silver trevally in New Zealand used genomics to analyze pedigree structure, genetic diversity, and growth patterns. Results showed potential for genetic improvement in economically important traits, making silver trevally a promising species for selective breeding.
EVOLUTIONARY APPLICATIONS
(2022)
Article
Evolutionary Biology
Noemie Valenza-Troubat, Marcus Davy, Roy Storey, Elena Hilario, Peter Ritchie, Maren Wellenreuther
Summary: Temperature has a significant impact on the growth and gene expression patterns of ectotherm species. In this study, the plasticity of growth and gene expression in response to different temperatures was investigated using silver trevally as a model. The results showed that temperature affects growth and regulates the expression of genes involved in metabolism, cell regulation, and signaling pathways. Furthermore, genes related to the reproductive system were up-regulated under high temperature conditions in both tissues.
EVOLUTIONARY APPLICATIONS
(2022)
Article
Multidisciplinary Sciences
Krishna Moorthy Babu, Daniel Bentall, David T. Ashton, Morgan Puklowski, Warren Fantham, Harris T. Lin, Nicholas P. L. Tuckey, Maren Wellenreuther, Linley K. Jesson
Summary: This study explored the use of machine learning architectures to improve the accuracy and efficiency of juvenile fish counting in aquaculture breeding. The results showed that the machine learning models had high accuracy after tuning, enabling rapid assessment of fish counts and facilitating higher throughput. This work provides a useful starting point for further developments in real-time counting and data collection.
JOURNAL OF THE ROYAL SOCIETY OF NEW ZEALAND
(2023)
Article
Fisheries
Damian Moran, Jonathan Schleyken, Christina Flammensbeck, Warren Fantham, David Ashton, Maren Wellenreuther
Summary: This study compares a wild strain and a selectively bred elite strain of Chrysophrys auratus. The results show that the selectively bred strain exhibits significantly improved performance in all measured traits, including survival rate, weight gain, and feed conversion ratio. In addition, the selectively bred strain has lower intra-cohort variation and is less sensitive to feeding frequency. This suggests that genomics-assisted selective breeding has great potential for the farming of C. auratus in Australasia.
Article
Ecology
Tom Oosting, Lourdes Martinez-Garcia, Giada Ferrari, Alexander J. F. Verry, Lachie Scarsbrook, Nicolas J. Rawlence, Maren Wellenreuther, Bastiaan Star, Peter A. Ritchie
Summary: This study analyzed modern and ancient mitochondrial genomes of Australasian snapper to assess its demographic and phylogeographic history. The results showed high nucleotide diversity and haplotype diversity, with no significant change in diversity over the last 750 years. Phylogeographic analysis revealed barriers to gene flow approximately 650,000 years ago and a post-glacial expansion around 8000 years ago.
Article
Genetics & Heredity
Yvan Papa, Maren Wellenreuther, Mark A. Morrison, Peter A. Ritchie
Summary: This study generated a highly contiguous genome assembly and isoform-resolved transcriptome of the marine teleost tarakihi, providing a useful resource for population genomics and comparative eco-evolutionary studies in teleosts and related organisms.
G3-GENES GENOMES GENETICS
(2023)
Article
Microbiology
Emma L. Berdan, Fabian Roger, Maren Wellenreuther, Alexandra Kinnby, Gunnar Cervin, Ricardo Pereyra, Mats Topel, Kerstin Johannesson, Roger K. Butlin, Carl Andre
Summary: Sandy beaches are important biogeochemical hotspots that connect marine and terrestrial ecosystems via organic matter transfer. This study investigates the microbial communities of wrackbeds and a primary consumer, the seaweed fly, along a well-studied ecological gradient. The results show the dominance of polysaccharide degraders in both microbiomes, with consistent differences between wrackbed and fly samples. Additionally, shifts in microbial communities and functionality between the North and Baltic Sea are observed, potentially due to changes in the composition of polysaccharides in different seaweed communities. This study highlights the complexity of wrackbed microbial communities and the trophic consequences of shifts in near shore algal communities.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Fisheries
A. Bertram, J. Bell, C. J. Brauer, A. Fowler, P. Hamer, J. Sandoval-Castillo, J. Stewart, M. Wellenreuther, L. B. Beheregaray
Summary: In southeastern Australia, population genomic differentiation in snapper is concordant with coastal biogeographic boundaries and related to spawning and recruitment dynamics. The current management boundaries align with genetic breaks at bioregional boundaries or local-scale variation. This study highlights the value of population genomic surveys in uncovering stock boundaries and demographic variation related to spawning and recruitment in species with high dispersal potential, and emphasizes the importance of marine biogeography in shaping population structure in commercially important species.
ICES JOURNAL OF MARINE SCIENCE
(2023)
Article
Agronomy
Daniel Mertten, Samantha Baldwin, Canhong H. Cheng, John Mccallum, Susan Thomson, David T. Ashton, Catherine M. Mckenzie, Michael Lenhard, Paul M. Datson
Summary: This study estimated heritability using a linear mixed model approach for vine-related and fruit-related traits in kiwiberries, and compared the effects of different sources of relationship matrices and ploidy levels on the accuracy of estimation.
MOLECULAR BREEDING
(2023)
Article
Biochemistry & Molecular Biology
Matthew J. Wylie, Jane Kitson, Khyla Russell, Goro Yoshizaki, Ryosuke Yazawa, Tammy E. Steeves, Maren Wellenreuther
Summary: The article highlights the urgency of preserving biodiversity and mitigating the loss of global biodiversity. It emphasizes the potential and considerations of germplasm cryopreservation and broodstock surrogacy techniques in this regard.
MOLECULAR ECOLOGY RESOURCES
(2023)
Editorial Material
Ecology
Dafni Anastasiadi, Maren Wellenreuther
Summary: This study investigated DNA methylation across the animal kingdom and identified conserved associations between sequence and DNA methylation.
TRENDS IN ECOLOGY & EVOLUTION
(2023)