Article
Plant Sciences
Jiao Zhang, Xiulian Chi, Juying Zhong, Alisdair Fernie, Saleh Alseekh, Luqi Huang, Dan Qian
Summary: This study found non-concerted evolution of internal transcribed spacer (ITS) sequences in the genus Lycium, showing high levels of polymorphism. The ITS paralogues were identified as pseudogenes or functional copies, with distinct differences from their corresponding functional copies. The results suggest a link between the non-concerted evolution of ITS and recent divergence of tandem repeats within the Lycium genome and hybridization between species.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Min Zhang, Yi-Wei Tang, Ying Xu, Takahiro Yonezawa, Yang Shao, Yu-Guo Wang, Zhi-Ping Song, Ji Yang, Wen-Ju Zhang
Summary: A high level of rDNA polymorphism exists universally in the genus Camellia, with functional rDNA being relatively conserved. Sequence variations mainly come from rRNA pseudogenes and GC-rich regions in the genome, indicating a mixture of concerted and birth-and-death evolution in Camellia.
Article
Fisheries
Zhansheng Guo, Zhen Wang, Xuguang Hou
Summary: The study obtained the complete ribosomal DNA unit sequences of Ruditapes philippinarum and Mercenaria mercenaria for the first time, revealing genetic differences mainly in non-coding regions between them, and confirming the boundaries of certain unit structures.
Article
Multidisciplinary Sciences
Daniele De Luca, Wiebe H. C. F. Kooistra, Diana Sarno, Elio Biffali, Roberta Piredda
Summary: Concerted evolution is a process of homogenisation of repetitive sequences within a genome. By studying Chaetoceros species, researchers found that the dominant haplotype is a result of efficient homogenisation mechanism, while minor haplotypes are mostly generated by incomplete homogenisation. Additionally, the study showed that phylogenetic networks can be inferred from environmental data to visualize concerted evolution.
SCIENTIFIC REPORTS
(2021)
Article
Agronomy
Jingchun Wu, Dengan Xu, Luping Fu, Ling Wu, Weihao Hao, Jihu Li, Yan Dong, Fengju Wang, Yuying Wu, Zhonghu He, Hongqi Si, Chuanxi Ma, Xianchun Xia
Summary: In this study, we conducted fine mapping and candidate gene analysis of the stripe rust resistance gene YrZM175 in the Chinese wheat cultivar Zhongmai 175. Through bulked segregant RNA-seq analysis, we identified a genomic interval on chromosome arm 2AL where YrZM175 is located and predicted a potential candidate gene for map-based cloning. Collinearity analysis and gene expression level analysis further supported the identification of the candidate gene. The fine mapping of YrZM175 provides a solid foundation for functional gene analysis and marker-assisted selection for improved stripe rust resistance in wheat.
THEORETICAL AND APPLIED GENETICS
(2022)
Article
Plant Sciences
Yufan Wang, Yanling Hu, Fangyi Gong, Yarong Jin, Yingjie Xia, Yu He, Yun Jiang, Qiang Zhou, Jingshu He, Lihua Feng, Guoyue Chen, Youliang Zheng, Dengcai Liu, Lin Huang, Bihua Wu
Summary: Stripe rust, caused by Puccinia striiformis f. sp. tritici, is a damaging disease of wheat globally, and breeding resistant cultivars is the best control strategy. This study aimed to identify and map quantitative trait loci (QTL) for resistance to stripe rust in a population of 154 recombinant inbred lines (RILs) derived from a cross between cultivars Taichang29 (TC29) and Shumai126 (SM126). Six QTL were mapped on chromosomes 1BL, 2AS, 2AL, 6AS, 6BS, and 7BL, respectively, with QYr.sicau-1BL and QYr.sicau-2AS having major effects.
Article
Agronomy
Mei Deng, Li Long, Yukun Cheng, Fangjie Yao, Fangnian Guan, Yuqi Wang, Hao Li, Zhien Pu, Wei Li, Qiantao Jiang, Yuming Wei, Jian Ma, Houyang Kang, Pengfei Qi, Jirui Wang, Youliang Zheng, Yunfeng Jiang, Guoyue Chen
Summary: In this study, three quantitative trait loci (QTL) associated with adult-plant stripe rust resistance were identified from the Chinese wheat landrace Yibinzhuermai. Among them, QYr.YBZR-6AL and QYr.YBZR-7DS had major effects in different field environments. Furthermore, haplotype analysis revealed that the resistance allele at QYr.YBZR-6AL was present in a small proportion of Chinese wheat landraces.
Article
Biochemistry & Molecular Biology
Duojia Li, Dhyey Gandhi, Tomohiro Kumon, Yukiko M. Yamashita, Amanda Larracuente
Summary: Karyotype refers to the configuration of the genomes in a set of chromosomes. Differences in karyotype between species can hinder biological processes and contribute to incompatibility. This study describes a unique karyotype of a Drosophila melanogaster strain isolated from the Seychelles archipelago, which has lost the ribosomal DNA locus on the X chromosome. The strain also carries a truncated Y chromosome that is stably maintained in the population, despite its inability to support male fertility. The study suggests that the Y chromosome has a larger negative impact on female fitness than the truncated Y chromosome. Furthermore, an independent strain lacking X rDNA quickly evolved multiple karyotypes, including new truncated Y chromosomes and X chromosome fusions containing the Y-derived rDNA fragment, eliminating females' dependence on the Y chromosome. The study proposes that rDNA loci instability may be one of the driving forces of karyotype evolution, a phenomenon also observed in humans.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Agronomy
Reda Ibrahim Omara, Yasser S. A. Mazrou, Abdelrahman Elsayed, Nevien Moawad, Yasser Nehela, Atef A. Shahin
Summary: Wheat is a major crop in Egypt and an effective system called MISSR has been developed to monitor and predict wheat diseases, especially stripe rust, and provide timely advice to farmers.
Review
Ecology
Wencai Wang, Xianzhi Zhang, Sonia Garcia, Andrew R. Leitch, Ales Kovarik
Summary: The classical model of concerted evolution states that rDNA units undergo homogenization, making the multiple copies of the individual units more uniform across the genome than would be expected. However, advanced sequencing techniques have revealed that rDNA homogenization in many organisms is not complete. This work summarizes the variation in rDNAs across different taxa and discusses the factors contributing to this incomplete concerted evolution.
Article
Biology
Valentyna Klymiuk, Harmeet Singh Chawla, Krystalee Wiebe, Jennifer Ens, Andrii Fatiukha, Liubov Govta, Tzion Fahima, Curtis J. Pozniak
Summary: Durable crop disease resistance is crucial for global food security. In this study, a highly resistant allele Yr84 was identified in wild emmer wheat using a BSA-Seq approach. The precise location of Yr84 was determined and genetic markers closely linked to Yr84 were developed, facilitating marker-assisted selection for rust resistance breeding.
COMMUNICATIONS BIOLOGY
(2022)
Article
Food Science & Technology
Jong Min Lee, So Hee Park, Chun-Zhi Jin, Min-Kyoung Kang, Dong-Jin Park, Chang-Jin Kim
Summary: Analysis of untranscribed DNA sequences in intergenic spacer regions (ISR) in groESL resolved ambiguity between closely related GRAS and non-GRAS species. Using groESL-ISR-specific primers for PCR sequencing accurately differentiated L. plantarum and L. pentosus, showing more accuracy than 16S rRNA sequences. Major probiotics species were grouped based on ISR sequences, which correlated with core-genome differentiation, indicating ISR-based species identification provides more accurate results than 16S rRNA-based identification and represents genome-based speciation.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Plant Sciences
Qian Jiang, Hongli Wang, Haiguang Wang
Summary: This study investigated severity assessment methods for wheat stripe rust based on machine learning. By using image processing techniques, training and testing sets were constructed using segmentation and pixel statistics operations. Unsupervised and supervised learning methods were used to build severity assessment models, with satisfactory performance achieved regardless of considering healthy wheat leaves or not.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Carolina Osuna-Mascaro, Rafael Rubio de Casas, Modesto Berbel, Jose M. Gomez, Francisco Perfectti
Summary: This study investigated the dynamics of concerted evolution in plant species of the genus Erysimum. The results showed incomplete sequence homogenization, especially in polyploid samples, indicating a lack of concerted evolution. Furthermore, ITS2 exhibited higher homogenization compared to ITS1, and hybrid origin appeared to contribute to the maintenance of high haplotype diversity.
SCIENTIFIC REPORTS
(2022)
Article
Plant Sciences
Qing Bai, Tinglan Liu, Anmin Wan, Meinan Wang, Deven R. See, Xianming Chen
Summary: Barley stripe rust, caused by the pathogen Puccinia striiformis f. sp. hordei (Psh), is a relatively new disease in the United States. This study reveals rapid genetic changes and major molecular group shifts in Psh populations around 2000 and 2010, indicating the dynamic nature of the disease population.
Article
Biotechnology & Applied Microbiology
Yanqing Han, Kang Zhang, Jun Yang, Nan Zhang, Anfei Fang, Yong Zhang, Yongfeng Liu, Zhiyi Chen, Tom Hsiang, Wenxian Sun
Article
Virology
Yinhui Jiang, Tingting Zhang, Chaoxi Luo, Daohong Jiang, Guoqing Li, Qili Li, Tom Hsiang, Junbin Huang
Article
Multidisciplinary Sciences
Yi Li, Xiao-Di Hu, Rui-Heng Yang, Tom Hsiang, Ke Wang, De-Quan Liang, Fan Liang, De-Ming Cao, Fan Zhou, Ge Wen, Yi-Jian Yao
SCIENTIFIC REPORTS
(2015)
Article
Biochemistry & Molecular Biology
Marc-Andre Lachance, Emilia Hurtado, Tom Hsiang
Article
Microbiology
C. H. Huang, T. Hsiang, J. T. Trevors
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2013)
Article
Microbiology
Gil Ju Seo, Rodney P. Kincaid, Teva Phanaksri, James M. Burke, Justin M. Pare, Jennifer E. Cox, Tien-Ying Hsiang, Robert M. Krug, Christopher S. Sullivan
CELL HOST & MICROBE
(2013)
Article
Agronomy
J. Tung, P. H. Goodwin, T. Hsiang
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2013)
Article
Agronomy
Fang Shi, Tom Hsiang
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2014)
Article
Biochemical Research Methods
Sajeet Haridas, Colette Breuill, Joerg Bohlmann, Tom Hsiang
JOURNAL OF MICROBIOLOGICAL METHODS
(2011)
Article
Immunology
Liping Liu, Dian Zhao, Lu Zheng, Tom Hsiang, Yangdou Wei, Yanping Fu, Junbin Huang
MICROBIAL PATHOGENESIS
(2013)
Article
Mycology
Y. J. Zhou, J. Zhang, X. D. Wang, L. Yang, D. H. Jiang, G. Q. Li, T. Hsiang, W. Y. Zhuang
Article
Multidisciplinary Sciences
Yong Zhang, Kang Zhang, Anfei Fang, Yanqing Han, Jun Yang, Minfeng Xue, Jiandong Bao, Dongwei Hu, Bo Zhou, Xianyun Sun, Shaojie Li, Ming Wen, Nan Yao, Li-Jun Ma, Yongfeng Liu, Min Zhang, Fu Huang, Chaoxi Luo, Ligang Zhou, Jianqiang Li, Zhiyi Chen, Jiankun Miao, Shu Wang, Jinsheng Lai, Jin-Rong Xu, Tom Hsiang, You-Liang Peng, Wenxian Sun
NATURE COMMUNICATIONS
(2014)
Article
Genetics & Heredity
Minfeng Xue, Jun Yang, Zhigang Li, Songnian Hu, Nan Yao, Ralph A. Dean, Wensheng Zhao, Mi Shen, Haiwang Zhang, Chao Li, Liyuan Liu, Lei Cao, Xiaowen Xu, Yunfei Xing, Tom Hsiang, Ziding Zhang, Jin-Rong Xu, You-Liang Peng
Article
Microbiology
Zhengxiang Sun, Tom Hsiang, Yi Zhou, Jinglong Zhou
GENOME ANNOUNCEMENTS
(2015)