Article
Biotechnology & Applied Microbiology
Xiaoqin Wang, Guixia Li, Yajing Sun, Zhongyu Qin, Pengcheng Feng
Summary: This study comprehensively investigated the relationship between the GRAS gene family and resistance in switchgrass, identifying gene duplication events as key contributors to the expansion of the GRAS genes in the switchgrass genome. The research provides insights into the resistance and bioavailability in switchgrass, and could facilitate further studies on the function of GRAS and GRAS-mediated signal transduction pathways.
Article
Agricultural Engineering
Bingchao Wu, Jie Zhu, Xixi Ma, Jiyuan Jia, Dan Luo, Qiong Ding, Xiaoshan Wang, Linkai Huang
Summary: By comparing the chloroplast genomes of upland and lowland ecotypes of switchgrass, this study reveals conservation in terms of repetitive sequences, codon usage, and the identification of a lowland-specific hotspot. The phylogenetic analysis also highlights the complexity of the evolutionary process of switchgrass.
INDUSTRIAL CROPS AND PRODUCTS
(2023)
Article
Biochemistry & Molecular Biology
Cheng Sun, Jiaxing Huang, Yun Wang, Xiaomeng Zhao, Long Su, Gregg W. C. Thomas, Mengya Zhao, Xingtan Zhang, Irwin Jungreis, Manolis Kellis, Saverio Vicario, Igor Sharakhov, Semen M. Bondarenko, Martin Hasselmann, Chang N. Kim, Benedict Paten, Luca Penso-Dolfin, Li Wang, Yuxiao Chang, Qiang Gao, Ling Ma, Lina Ma, Zhang Zhang, Hongbo Zhang, Huahao Zhang, Livio Ruzzante, Hugh M. Robertson, Yihui Zhu, Yanjie Liu, Huipeng Yang, Lele Ding, Quangui Wang, Dongna Ma, Weilin Xu, Cheng Liang, Michael W. Itgen, Lauren Mee, Gang Cao, Ze Zhang, Ben M. Sadd, Matthew W. Hahn, Sarah Schaack, Seth M. Barribeau, Paul H. Williams, Robert M. Waterhouse, Rachel Lockridge Mueller
Summary: Bumblebees are globally important pollinators facing threats such as pathogen transmission, habitat loss, pesticide usage, and global climate change. By de novo sequencing and assembling genomes of 17 species, researchers have identified genetic and genomic variations potentially linked to key ecological and behavioral traits. This study provides insights into the evolutionary processes of bumblebee genes and genomes across phylogeny and their adaptations for survival.
MOLECULAR BIOLOGY AND EVOLUTION
(2021)
Article
Plant Sciences
Kunliang Xie, Jinliang Guo, Shaoyu Wang, Wenjie Ye, Fengli Sun, Chao Zhang, Yajun Xi
Summary: This study identified the Hsf family in switchgrass and revealed its functional role in heat stress signal transduction and heat tolerance. PvHsf03 and PvHsf25 were found to play critical roles in the early and late stages of switchgrass response to heat stress, respectively, while HsfB mainly showed a negative response to heat stress. Additionally, ectopic expression of PvHsf03 significantly increased the heat resistance of Arabidopsis seedlings. This research provides a notable foundation for studying the regulatory network in response to deleterious environments and for further excavating tolerance genes in switchgrass.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2023)
Article
Genetics & Heredity
Wu Gan, Chenxi Zhao, Xinran Liu, Chao Bian, Qiong Shi, Xinxin You, Wei Song
Summary: The study constructed a genome assembly of spiny head croaker, revealing a closer relationship between C. lucidus and Larimichthys crocea, with some gene families related to calcium signaling pathway and inner ear function significantly expanded. Critical deletions or mutations were identified in some otolith-related genes, suggesting possible molecular mechanisms for well-developed otoliths in the Sciaenidae family.
FRONTIERS IN GENETICS
(2021)
Article
Plant Sciences
Lijuan Jiang, Dali Geng, Fang Zhi, Zhongxing Li, Yusen Yang, Yunlong Wang, Xiaoxia Shen, Xiuyun Liu, Yanqing Yang, Yange Xu, Yanlong Tang, Rui Du, Fengwang Ma, Qingmei Guan, Jing Zhang
Summary: A genome-wide association study in apple has identified a gene called SUPERMAN-like (SUP) that affects the contents of fatty acids and aromatic components in apple fruit. The study provides genetic and molecular information that can be used to improve the flavor and nutritional value of apple.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Urology & Nephrology
Stella Koutros, Lambertus A. Kiemeney, Parichoy Pal Choudhury, Roger L. Milne, Evangelina Lopez de Maturana, Yuanqing Ye, Vijai Joseph, Oscar Florez-Vargas, Lars Dyrskjot, Jonine Figueroa, Diptavo Dutta, Graham G. Giles, Michelle A. T. Hildebrandt, Kenneth Offit, Manolis Kogevinas, Elisabete Weiderpass, Marjorie L. McCullough, Neal D. Freedman, Demetrius Albanes, Charles Kooperberg, Victoria K. Cortessis, Margaret R. Karagas, Alison Johnson, Molly R. Schwenn, Dalsu Baris, Helena Furberg, Dean F. Bajorin, Olivier Cussenot, Geraldine Cancel-Tassin, Simone Benhamou, Peter Kraft, Stefano Porru, Angela Carta, Timothy Bishop, Melissa C. Southey, Giuseppe Matullo, Tony Fletcher, Rajiv Kumar, Jack A. Taylor, Philippe Lamy, Frederik Prip, Mark Kalisz, Stephanie J. Weinstein, Jan G. Hengstler, Silvia Selinski, Mark Harland, Mark Teo, Anne E. Kiltie, Adonina Tardon, Consol Serra, Alfredo Carrato, Reina Garcia-Closas, Josep Lloreta, Alan Schned, Petra Lenz, Elio Riboli, Paul Brennan, Anne Tjonneland, Thomas Otto, Daniel Ovsiannikov, Frank Volkert, Sita H. Vermeulen, K. K. Aben, Tessel E. Galesloot, Constance Turman, Immaculata De Vivo, Edward Giovannucci, David J. Hunter, Chancellor Hohensee, Rebecca Hunt, Alpa V. Patel, Wen-Yi Huang, Gudmar Thorleifsson, Manuela Gago-Dominguez, Pilar Amiano, Klaus Golka, Mariana C. Stern, Wusheng Yan, Jia Liu, Shengchao Alfred, Shilpa Katta, Amy Hutchinson, Belynda Hicks, William A. Wheeler, Mark P. Purdue, Katherine A. McGlynn, Cari M. Kitahara, Christopher A. Haiman, Mark H. Greene, Thorunn Rafnar, Nilanjan Chatterjee, Stephen J. Chanock, Xifeng Wu, Francisco X. Real, Debra T. Silverman, Montserrat Garcia-Closas, Kari Stefansson, Ludmila Prokunina-Olsson, Nuria Malats, Nathaniel Rothman
Summary: A meta-analysis of 32 studies identified novel genetic variants associated with bladder cancer risk and constructed a polygenic risk score (PRS) to stratify lifetime risk. These findings provide insights into the biological underpinnings of bladder cancer and have the potential to inform future preventive strategies.
Article
Plant Sciences
Yanlei Feng, Xiaoguo Xiang, Delara Akhter, Ronghui Pan, Zhixi Fu, Xiaohua Jin
Summary: This study decoded the mitochondrial genomes of Fagales, revealing their dynamic and mosaic characteristics, potentially influenced by independent and unequal transfers of third-party DNA.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Xiaoying Ye, Yongshun Gao, Canbin Chen, Fangfang Xie, Qingzhu Hua, Zhike Zhang, Rong Zhang, Jietang Zhao, Guibing Hu, Yonghua Qin
Summary: This study conducted a comprehensive genome-wide analysis of AQPs in pitaya, identifying the key role of HuNIP6;1 in regulating flowering time. Overexpression of HuNIP6;1 significantly promoted early flowering in Arabidopsis thaliana, suggesting its potential as a key regulator of flowering processes. This research provides valuable information for the utilization of HuAQPs in plant breeding and genetic engineering.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Shengnan Song, Liangxiao Zhang, Yan Zhao, Chen Sheng, Wangyi Zhou, Senouwa Segla Koffi Dossou, Linhai Wang, Jun You, Rong Zhou, Xin Wei, Xiurong Zhang
Summary: This study identified the genetic variants associated with primary metabolite content variation in sesame using metabolomics analysis and genome-wide association study. Several candidate causative genes were identified, including SiDSEL, SiCAC3, and SiKASI, which are responsible for multiple traits and fatty acid content variation. Overexpression of SiCAC3 in transgenic plants and yeast showed its potential as a target gene for improving unsaturated fatty acid levels in crops. This research provides valuable genetic resources for enhancing sesame seed quality and understanding primary metabolism in oilseed crops.
Article
Biochemistry & Molecular Biology
Canbin Chen, Fangfang Xie, Kamran Shah, Qingzhu Hua, Jiayi Chen, Zhike Zhang, Jietang Zhao, Guibing Hu, Yonghua Qin
Summary: This study reports the characterization and function of 70 WRKY genes in pitaya. It is found that HmoWRKY42 acts as a transcriptional repressor and regulates pitaya betalain biosynthesis by inhibiting the transcription of HmocDOPA5GT1. These findings provide a foundation for future research on the regulation and functions of the HuWRKY gene family.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Xiaoming Song, Haibin Liu, Shaoqin Shen, Zhinan Huang, Tong Yu, Zhuo Liu, Qihang Yang, Tong Wu, Shuyan Feng, Yu Zhang, Zhiyuan Wang, Weike Duan
Summary: The study reported a chromosome-level pepino genome, revealing chromosome rearrangements, fusions, and gene loss after WGT events, and the loss of disease resistance genes in pepino and eggplant. While disease resistance genes are scarce in pepino and eggplant, genes related to anthocyanin biosynthesis like CHS are significantly expanded in grapes.
Article
Plant Sciences
Yongbo Liu, Yi Zhou, Feng Cheng, Renchao Zhou, Yinqing Yang, Yanchang Wang, Xingtan Zhang, Douglas E. Soltis, Nengwen Xiao, Zhanjun Quan, Junsheng Li
Summary: This research provides evidence that much of the hexaploid genome of Actinidia deliciosa matches the diploid Actinidia chinensis. However, comparisons of intra- and intergenome synteny indicate chromosomal changes. The highly diversified pattern of gene expression and rapid population expansion after polyploidization likely facilitated the adaptation and niche differentiation of A. deliciosa in nature.
Article
Plant Sciences
Madiha Zaynab, Jiaofeng Peng, Yasir Sharif, Mohammed Albaqami, Rashid Al-Yahyai, Mahpara Fatima, Muhammad Azhar Nadeem, Khalid Ali Khan, Saqer S. Alotaibi, Ibrahim A. Alaraidh, Hassan O. Shaikhaldein, Shuangfei Li
Summary: This study conducted a comprehensive analysis of DDP proteins in the potato genome, identifying 10 DDP genes and studying their characteristics in terms of phylogenetics, gene duplication, expression profiles, and promoter regions involved in stress response. The research revealed that StDDP genes were distributed across different clades, and exhibited various expression patterns in response to heat stress and salt stress. Real-time qPCR results indicated that StDDPs played significant roles in potato growth and development.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Yan Zhong, Wei Wu, Chenyu Sun, Peishan Zou, Ying Liu, Seping Dai, Renchao Zhou
Summary: The genome of Melastoma candidum was sequenced and certain transcription factor genes related to trichome evolution were identified, providing insights into the rapid evolution and species diversification in the Melastoma genus.
FRONTIERS IN PLANT SCIENCE
(2023)