Article
Plant Sciences
Su-Kui Jin, Li-Na Xu, Qing-Qing Yang, Ming-Qiu Zhang, Shui-Lian Wang, Ruo-An Wang, Tao Tao, Lian-Min Hong, Qian-Qian Guo, Shu-Wen Jia, Tao Song, Yu-Jia Leng, Xiu-Ling Cai, Ji-Ping Gao
Summary: In this study, high-resolution QTL mapping was conducted to identify the genetic regions responsible for rice grain quality traits. A total of 15 QTLs were identified, including one overlapping with previously reported QTLs and the others being novel. These findings will facilitate the fine mapping and pyramiding of these QTLs, leading to genetic improvement of rice grain quality.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Edward Mwando, Tefera Tolera Angessa, Yong Han, Gaofeng Zhou, Chengdao Li
Summary: The study demonstrated significant impacts of salinity stress on survival traits of barley seedlings, particularly showing pronounced effects on shoot length and seedling vigour index length. QTL analysis revealed multiple genetic loci associated with salinity tolerance, some of which may potentially harbor candidate genes with functional significance.
Article
Plant Sciences
Qing Meng, Zhiyuan Liu, Chunda Feng, Helong Zhang, Zhaosheng Xu, Xiaowu Wang, Jian Wu, Hongbing She, Wei Qian
Summary: In this study, a major quantitative trait locus (QTL) related to early bolting in spinach was identified, and two candidate genes associated with flowering regulatory pathways were proposed. This research provides a basis for understanding the molecular mechanisms of bolting in spinach.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agriculture, Dairy & Animal Science
Mahboob Alam, Hyuk-Kee Chang, Seung-Soo Lee, Tae-Jeong Choi
Summary: The study investigated the genetic parameters of production and reproduction traits in Korean Duroc, Landrace, and Yorkshire pigs, revealing moderate to high heritability of production traits and low heritability of reproduction traits. Genetic correlations were found between certain traits, emphasizing the importance of careful breeding plans. The findings suggest potential for further improvement through selective breeding in Korean pig populations.
Article
Biochemical Research Methods
Siyuan Wang, Hongyu Wu, Yongyan Zhao, Luyao Wang, Xueying Guan, Ting Zhao
Summary: This study constructed a pipeline to identify candidate alternative splicing (AS) events related to complex traits. Using ovule transcriptome data in a natural population of upland cotton lines, splice quantitative trait locus (sQTL) analysis identified a total of 2295 sQTLs involving 1607 genes. Integration with expression quantitative trait locus (eQTL) revealed that 21.4% of cis-sQTL-regulated genes were also regulated by cis-eQTLs. Co-localization analysis with GWAS loci showed that 32 cis-QTLs were related to fiber yield and quality traits, suggesting the involvement of sQTLs in regulating cotton yield and quality. This study highlights the impact of mRNA alternative splicing on crop yield and identifies sQTLs as new genetic resources for cotton precision breeding.
Article
Plant Sciences
Qianqian Lu, Xiaoxia Yu, Huiting Wang, Zhuo Yu, Xia Zhang, Yaqi Zhao
Summary: This study mapped the quantitative trait loci (QTL) for yield traits in sorghum-sudangrass hybrids using a high-density genetic linkage map based on single nucleotide polymorphism markers. A total of 55 QTLs were detected, with 17 relatively high-frequency QTLs repeatedly found in multiple environments. The results provide a foundation for fine mapping of QTLs, candidate gene cloning, and molecular marker-assisted breeding of sorghum-sudangrass hybrids.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agriculture, Multidisciplinary
Zhang Zhe, Chen Zi-tao, Diao Shu-qi, Ye Shao-pan, Wang Jia-ying, Gao Ning, Yuan Xiao-long, Chen Zan-mou, Zhang Hao, Li Jia-qi
Summary: In a genome wide association study on Duroc pigs, 28 potential single nucleotide polymorphisms associated with growth and fatness traits were identified. Genes such as VPS4B and PHLPP1 were highlighted as plausible candidates contributing to the genetic architecture of porcine growth and fatness traits. These findings enhance our understanding of the genetic mechanisms underlying swine growth and fatness traits, with potential application in pig breeding programs.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2021)
Article
Plant Sciences
Jian Shi, Yunhe Wang, Chuanhong Wang, Lei Wang, Wei Zeng, Guomin Han, Chunhong Qiu, Tengyue Wang, Zhen Tao, Kaiji Wang, Shijie Huang, Shuaishuai Yu, Wanyi Wang, Hongyi Chen, Chen Chen, Chen He, Hui Wang, Peiling Zhu, Yuanyuan Hu, Xin Zhang, Chuanxiao Xie, Xiaoduo Lu, Peijin Li
Summary: In this study, the genetic architecture of six flowering time-related traits in maize was comprehensively analyzed using a recombinant inbred line population. Through QTL mapping and genome-wide association studies, a total of 82 QTLs containing 13 flowering genes and 17 new candidate genes associated with flowering time were identified, providing important insights for breeding of flowering time traits in maize.
Article
Plant Sciences
Sanjeev Kumar Dhungana, Ji-Hee Park, Jae-Hyeon Oh, Beom-Kyu Kang, Jeong-Hyun Seo, Jung-Sook Sung, Hong-Sik Kim, Sang-Ouk Shin, In-Youl Baek, Chan-Sik Jung
Summary: This study identified 10 QTLs for drought tolerance in soybean using a recombinant inbred line population developed from a cross between a drought-tolerant and a susceptible cultivar. The QTLs were found on seven chromosomes, with some overlapping or located close to previously reported related QTLs and/or potential candidate genes. These QTLs and closely linked markers could be used in marker-assisted selection to accelerate breeding for drought tolerance in soybean.
Article
Agronomy
Guangzhi Mao, Hengling Wei, Pengyun Chen, Feng Xing, Hantao Wang
Summary: In this study, a high-density genetic map and genotyping method were used to identify QTLs for early-maturing traits, resulting in the discovery of stable QTLs and candidate genes. This research provides valuable information for fine mapping and breeding of early-maturing traits.
Article
Plant Sciences
Yun-Feng Xu, Fei-Fei Ma, Jin-Peng Zhang, Hong Liu, Li-Hui Li, Diao-Guo An
Summary: In this study, a recombinant inbred line (RIL) population derived from the wheat-Agropyron cristatum germplasm PB3228 was developed and a high-density genetic map was constructed. Five environmentally stable quantitative trait loci (QTLs) related to grain number and spikelet number per spike were identified, with PB3228 contributing significantly to these QTLs.
Article
Genetics & Heredity
Chaeyoung Lee
Summary: This paper discusses the importance and challenges of discovering expression quantitative trait loci (eQTLs), focusing on the complexity of eTraits and the voluminous work required for eQTL profiles. It presents the properties and prospects of statistical methods, including the mixed model method, Bayesian inference, deep learning, and integration methods, as future directions for eQTL discovery.
Article
Plant Sciences
Xiangru Qu, Jiajun Liu, Xinlin Xie, Qiang Xu, Huaping Tang, Yang Mu, Zhien Pu, Yang Li, Jun Ma, Yutian Gao, Qiantao Jiang, Yaxi Liu, Guoyue Chen, Jirui Wang, Pengfei Qi, Ahsan Habib, Yuming Wei, Youliang Zheng, Xiujin Lan, Jian Ma
Summary: This study identified 65 QTL associated with kernel traits in wheat, with major QTL located on chromosomes 1BL, 2DL, and 6DS forming three QTL clusters. A novel QTL was discovered on chromosome 1BL, and a KASP marker was developed to confirm its effect in different genetic populations. Several predicted genes involved in regulating kernel growth and development were identified, providing valuable information for molecular marker-assisted breeding.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Genetics & Heredity
Zheng Chang Wu, Yifu Wang, Xiaoguo Huang, Shenglong Wu, Wenbin Bao
Summary: Improving the reproductive efficiency of sows is a major challenge in the swine industry. This study identified genetic markers associated with reproductive traits in Large White pigs and suggested the use of marker-assisted selection for genetic improvement.
Article
Fisheries
Lei Wang, Lan Zhang, Yuhan Chen, Junping Chen, Meng Zhang, Miao Yu, Hongxia Jiang, Zhigang Qiao, Xuejun Li
Summary: This study explores the genetic regulation mechanism of overwintering growth in Yellow River carp, identifying growth-related QTLs and candidate genes associated with biological activities. These findings provide valuable references for breeding and genetic selection of Yellow River carp.
Article
Agriculture, Multidisciplinary
Wendy M. Rauw, Lotta Rydhmer, Ilias Kyriazakis, Margareth overland, Helene Gilbert, Jack C. M. Dekkers, Susanne Hermesch, Alban Bouquet, Emilio Gomez Izquierdo, Isabelle Louveau, Luis Gomez-Raya
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
(2020)
Article
Agriculture, Dairy & Animal Science
T. Soleimani, H. Gilbert
Article
Agriculture, Dairy & Animal Science
V. Deru, A. Bouquet, C. Hassenfratz, B. Blanchet, C. Carillier-Jacquin, H. Gilbert
Article
Agriculture, Dairy & Animal Science
Ingrid David, Amir Aliakbari, Vanille Deru, Herve Garreau, Helene Gilbert, Anne Ricard
JOURNAL OF ANIMAL BREEDING AND GENETICS
(2020)
Article
Agriculture, Dairy & Animal Science
Vanille Deru, Alban Bouquet, Etienne Labussiere, Philippe Ganier, Benoit Blanchet, Celine Carillier-Jacquin, Helene Gilbert
Summary: The study investigated the impact of alternative HF diets on pig digestibility, showing that pigs fed the HF diet had lower digestibility coefficients. Digestibility coefficients were moderately to highly heritable in both CO and HF diets, with favorable genetic correlations with feed conversion ratio but unfavorable correlations with average daily gain and carcass yield.
JOURNAL OF ANIMAL BREEDING AND GENETICS
(2021)
Article
Agriculture, Dairy & Animal Science
Amir Aliakbari, Olivier Zemb, Yvon Billon, Celine Barilly, Ingrid Ahn, Juliette Riquet, Helene Gilbert
Summary: This study found genetic variations in the gut microbial community are associated with feed efficiency and production traits in pigs, suggesting potential for selection for feed efficiency using gut microbiome composition.
JOURNAL OF ANIMAL BREEDING AND GENETICS
(2021)
Article
Agriculture, Dairy & Animal Science
Tara Soleimani, Susanne Hermesch, Helene Gilbert
Summary: By selecting for pig feed efficiency and optimizing diets, sustainable farm feed efficiency can be improved, leading to increased profitability and reduced environmental impact in pig production systems. The study highlights the importance of feed efficiency in improving sustainability and reducing environmental footprints in pig production.
JOURNAL OF ANIMAL SCIENCE
(2021)
Article
Evolutionary Biology
Frederic Douhard, Mathieu Douhard, Helene Gilbert, Philippe Monget, Jean-Michel Gaillard, Jean-Francois Lemaitre
Summary: Trade-offs between life history traits are influenced by limited resources in organisms, with less impact in nutrient-rich or benign environments. Despite strong selection for higher productivity in domestic animals, negative genetic correlations between productivity and health/fertility traits suggest trade-offs exist, particularly in nonlimiting resource contexts. Time constraints and trade-offs may play a more significant role than feed availability in limiting genetic changes and predicting selection outcomes in livestock.
EVOLUTIONARY APPLICATIONS
(2021)
Article
Agriculture, Dairy & Animal Science
V Deru, A. Bouquet, O. Zemb, B. Blanchet, M. L. De Almeida, L. Cauquil, C. Carillier-Jacquin, H. Gilbert
Summary: The composition of gut microbiota in pigs is influenced by diet and plays an important role in digestion. This study investigated the genetic correlations between microbiota traits and feed efficiency and digestive efficiency traits in pigs fed conventional or high-fiber diets. The results showed limited genetic by diet interactions on gut microbiota composition, suggesting that microbiota-based traits could be used as proxies to improve feed and digestive efficiency in pigs.
JOURNAL OF ANIMAL SCIENCE
(2022)
Article
Agriculture, Dairy & Animal Science
Raphaelle Duclos, Elsa Delanoue, Anne-Charlotte Dockes, Laurent Journaux, Michel Sourdioux, Jean-Pierre Bidanel
Summary: This article examines the controversies surrounding the application of genetic tools to farm animals and argues that this subject has the potential to become a public debate. It reviews the uncertainties and legal framework debates related to this topic, explores possible approaches for discussing the subject, and provides an overview of the actors involved in the discussion. The article suggests that the topic remains confined to the scientific and professional environment, but a few positions have emerged with regards to animal welfare.
INRA PRODUCTIONS ANIMALES
(2022)
Article
Biology
Nathalie Iannuccelli, Nicolas Mary, Nathalie Bonnet, Geoffrey Petit, Carine Valle, Alain Ducos, Juliette Riquet
Summary: This study evaluates the use of SNP markers as an alternative technology to identify hybridization between domestic pigs and wild boars and aims to develop a molecular diagnostic tool. By conducting experiments on 362 wild boars, a large amount of genotype data was generated, which can be used for evaluating hybridization and genetic diversity studies.
BMC RESEARCH NOTES
(2022)
Article
Biochemistry & Molecular Biology
David Wragg, Sonia E. Eynard, Benjamin Basso, Kamila Canale-Tabet, Emmanuelle Labarthe, Olivier Bouchez, Kaspar Bienefeld, Malgorzata Bienkowska, Cecilia Costa, Ales Gregorc, Per Kryger, Melanie Parejo, M. Alice Pinto, Jean-Pierre Bidanel, Bertrand Servin, Yves Le Conte, Alain Vignal
Summary: Honey bee subspecies originate from specific geographical areas and have been imported to different regions. To better understand Western European honey bee populations, researchers conducted a genome sequence and SNP genotype analysis.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biology
Nathalie Iannuccelli, Julien Sarry, Yvon Billon, Patrick Aymard, Virginie Helies, Cedric Cabau, Cecile Donnadieu, Julie Demars
Summary: This study utilized a sequencing-based genotyping method to identify major genes in rabbit populations. A targeted strategy was employed by capturing the rabbit exome using a human panel. The resulting dataset can aid in improving annotation of the rabbit genome, enriching characterization of polymorphisms in rabbits, and evaluating genetic biodiversity in different rabbit strains.
BMC RESEARCH NOTES
(2022)
Article
Agriculture, Dairy & Animal Science
Vanille Deru, Francesco Tiezzi, Celine Carillier-Jacquin, Benoit Blanchet, Laurent Cauquil, Olivier Zemb, Alban Bouquet, Christian Maltecca, Helene Gilbert
Summary: The study found that the gut microbiota significantly influenced the phenotypic variability of digestive efficiency traits, even more than host genetics. The use of microbiota information could enhance the selection of digestive efficiency traits, and to a lesser extent, growth and feed efficiency traits. Filtering OTU is an important step that influences microbiability.
GENETICS SELECTION EVOLUTION
(2022)
Article
Agriculture, Dairy & Animal Science
Fany Blanc, Tatiana Maroilley, Manuel Revilla, Gaetan Lemonnier, Jean-Jacques Leplat, Yvon Billon, Laure Ravon, Olivier Bouchez, Jean-Pierre Bidanel, Bertrand Bed'Hom, Marie-Helene Pinard-van der Laan, Jordi Estelle, Claire Rogel-Gaillard
Summary: The study highlights the impact of individual genetic and genomic variations on vaccine effectiveness, as well as the correlation between pre-vaccination blood transcriptome and antibody responses. Analyses revealed associations between blood biomarkers and genomic regions with variations in M. hyo antibody levels at different time points.
GENETICS SELECTION EVOLUTION
(2021)