Journal of Genetics and Genomics最新文献_第10页

Revealing extensive inbreeding and less-efficient purging of deleterious mutations in wild Amur tigers in China. 揭示了中国野生阿穆尔虎广泛的近亲繁殖和对有害突变的低效清除。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-12 DOI: 10.1016/j.jgg.2024.12.004

Tianming Lan, Haimeng Li, Boyang Liu, Minhui Shi, Yinping Tian, Sunil Kumar Sahu, Liangyu Cui, Nicolas Dussex, Dan Liu, Yue Ma, Weiyao Kong, Shanlin Liu, Jiale Fan, Yue Zhao, Yuan Fu, Qiye Li, Chen Lin, Love Dalén, Huan Liu, Le Zhang, Guangshun Jiang, Yanchun Xu

{"title":"Revealing extensive inbreeding and less-efficient purging of deleterious mutations in wild Amur tigers in China.","authors":"Tianming Lan, Haimeng Li, Boyang Liu, Minhui Shi, Yinping Tian, Sunil Kumar Sahu, Liangyu Cui, Nicolas Dussex, Dan Liu, Yue Ma, Weiyao Kong, Shanlin Liu, Jiale Fan, Yue Zhao, Yuan Fu, Qiye Li, Chen Lin, Love Dalén, Huan Liu, Le Zhang, Guangshun Jiang, Yanchun Xu","doi":"10.1016/j.jgg.2024.12.004","DOIUrl":"10.1016/j.jgg.2024.12.004","url":null,"abstract":"Inbreeding increases genome homozygosity within populations, which can exacerbate inbreeding depression by exposing homozygous deleterious alleles that are responsible for declines in fitness traits. In small populations, genetic purging that occurs under pressure of natural selection acts as an opposing force, contributing to a reduction of deleterious alleles. Both inbreeding and genetic purging are paramount in the field of conservation genomics. The Amur tiger (Panthera tigris altaica) lives in small populations in the forests of Northeast Asia and is among the most endangered animals on the planet. Using genome-wide assessment and comparison, we reveal substantially higher and more extensive inbreeding in wild Amur tigers (FROH = 0.50) than in captive individuals (FROH = 0.24). However, a relatively reduced number of loss-of-function mutations in wild Amur tigers is observed when compared with captive individuals, indicating a genetic purging of relatively large-effect inbreeding load. The higher ratio of homozygous mutation load and number of fixed damaging alleles in the wild population indicate a less-efficient genetic purging, with purifying selection also contributing to this process. These findings provide valuable insights for future conservation of Amur tigers.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2024-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142824887","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genomic Insights into the Absence of Root Nodule Formation and Nitrogen Fixation in Zenia insignis. 荆芥根瘤形成和固氮缺失的基因组分析。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-09 DOI: 10.1016/j.jgg.2024.12.001

Hang Yu, Yongbin Lu, Chao Zhang, Wenyuan Yang, Hongjiang Xie, Huiru Liu, Haifeng Wang

引用次数: 0

Advances in plant oxygen sensing: endogenous and exogenous mechanisms. 植物氧传感的研究进展：内源和外源机制。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-09 DOI: 10.1016/j.jgg.2024.11.014

Zhen Yan, Songyi Yang, Chen Lin, Jin Yan, Meng Liu, Si Tang, Weitao Jia, Jianquan Liu, Huanhuan Liu

{"title":"Advances in plant oxygen sensing: endogenous and exogenous mechanisms.","authors":"Zhen Yan, Songyi Yang, Chen Lin, Jin Yan, Meng Liu, Si Tang, Weitao Jia, Jianquan Liu, Huanhuan Liu","doi":"10.1016/j.jgg.2024.11.014","DOIUrl":"10.1016/j.jgg.2024.11.014","url":null,"abstract":"Oxygen is essential for the biochemical processes that sustain life in eukaryotic organisms. Although plants produce oxygen through photosynthesis, they often struggle to survive in low-oxygen environments, such as during flooding or submergence. To endure these conditions, they must reprogram their developmental and metabolic networks, and the adaptation process involves the continuous detection of both exogenous hypoxic signals and endogenous oxygen gradients. Recent research has significantly advanced our understanding of how plants respond to both endogenous and exogenous hypoxia signals. In this review, we explore advancements in both areas, comparing them to responses in animals, with a primary focus on how plants perceive and respond to exogenous hypoxic conditions, particularly those caused by flooding or submergence, as well as the hypoxia signaling pathways in different crops. Additionally, we discuss the interplay between endogenous and exogenous hypoxia signals in plants. Finally, we discuss future research directions aimed at improving crop resilience to flooding by integrating the perception and responses to both endogenous and exogenous signals. Through these efforts, we aspire to contribute to the development of crop varieties that are not only highly resistant but also experience minimal growth and yield penalties, thereby making substantial contributions to agricultural science.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2024-12-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142787768","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multi-view BLUP: a promising solution for post-omics data integrative prediction. 多视图BLUP：一个有前途的后组学数据整合预测解决方案。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-05 DOI: 10.1016/j.jgg.2024.11.017

Bingjie Wu, Huijuan Xiong, Lin Zhuo, Yingjie Xiao, Jianbing Yan, Wenyu Yang

引用次数: 0

Ancient DNA reveals genetic exchange in the Hehuang valley in the context of demic diffusion during the Han dynasty. 古代DNA揭示了汉代学术传播背景下河黄流域的基因交换。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-03 DOI: 10.1016/j.jgg.2024.11.013

Langyun Wang, Yutong Wang, Bing Sun, Daxuan Zhang, Guanjin Liang, Pengcheng Ma, Hao Zhang, Chunxiang Li, Xiaojun Hu, Quanchao Zhang, Yinqiu Cui

引用次数: 0

FishCODE: a web-based information platform for comprehensive omics data exploration in fish research. FishCODE：一个基于网络的信息平台，用于在鱼类研究中全面探索 omics 数据。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-01 Epub Date: 2024-10-09 DOI: 10.1016/j.jgg.2024.09.019

Heng Li, Wanting Zhang, Keyi Ren, Hong Yang, Lei Zhang, Waqar Younas, Yingyin Cheng, Yaping Wang, Mijuan Shi, Xiao-Qin Xia

引用次数: 0

A haplotype-resolved genome reveals the genetic basis of spine formation in Atelerix albiventris. 单倍型解析基因组揭示了 Atelerix albiventris 脊柱形成的遗传基础。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-01 Epub Date: 2024-06-29 DOI: 10.1016/j.jgg.2024.06.012

Libo Jiang, Jianing Xu, Mengyuan Zhu, Zhongfan Lv, Zemin Ning, Fengtang Yang

引用次数: 0

Capn3b-deficient zebrafish model reveals a key role of autoimmune response in LGMDR1. Capn3b缺陷斑马鱼模型揭示了自身免疫反应在LGMDR1中的关键作用。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-01 Epub Date: 2024-09-28 DOI: 10.1016/j.jgg.2024.09.011

Yayue Chen, Delai Huang, Aixuan Xie, Ying Shan, Shuyi Zhao, Ce Gao, Jun Chen, Hui Shi, Weihuan Fang, Jinrong Peng

{"title":"Capn3b-deficient zebrafish model reveals a key role of autoimmune response in LGMDR1.","authors":"Yayue Chen, Delai Huang, Aixuan Xie, Ying Shan, Shuyi Zhao, Ce Gao, Jun Chen, Hui Shi, Weihuan Fang, Jinrong Peng","doi":"10.1016/j.jgg.2024.09.011","DOIUrl":"10.1016/j.jgg.2024.09.011","url":null,"abstract":"Mutations in calcium-dependent papain-like protease CALPAIN3 (CAPN3) cause Limb-Girdle Muscular Dystrophy Recessive Type 1 (LGMDR1), the most common limb-girdle muscular dystrophy in humans. In addition to progressive muscle weakness, persistent inflammatory infiltration is also a feature of LGMDR1. Despite the underlying mechanism remaining poorly understood, we consider that it may relate to the newly defined role of CAPN3/Capn3b in the nucleolus. Here, we report that the loss of function of zebrafish capn3b, the counterpart of human CAPN3, induces an autoimmune response akin to that in LGMDR1 patients. capn3b mutant larvae are more susceptible to Listeria monocytogenes injection, characterized by recruiting more macrophages. Under germ-free conditions, transcriptome analysis of the capn3b mutant muscle reveals a significant upregulation of the chemokine-production-related genes. Coincidently, more neutrophils are recruited to the injury site imposed by either muscle stabbing or tail fin amputation. Nucleolar proteomic analysis and enzymatic assays reveal NKAP, an activating factor of the NF-κB pathway, to be a target of CAPN3. We conclude that the accumulation of Nkap and other factors in the capn3b mutant may be involved in the over-activation of innate immunity. Our studies indicate that the zebrafish capn3b mutant is a powerful model for studying the immunity-related progression of human LGMDR1.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":"1375-1388"},"PeriodicalIF":6.6,"publicationDate":"2024-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142332641","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Variants within KIF5B are associated with weight loss through mitochondrial transport alteration in sheep. KIF5B 变异与绵羊线粒体转运改变导致的体重减轻有关。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-01 Epub Date: 2024-09-26 DOI: 10.1016/j.jgg.2024.09.009

Jieran Chen, Haitao Wang, Tingting Li, Yuting Zhang, Yan Chen, Na Zhang, Hengqian Yang, Zhichao Zhang, Ziyuan Duan, Xia Li, Daxiang Wang, Zhixiong He, Fan Hu, Jianfeng Gao, Runlin Z Ma, Xun Huang, Qiuyue Liu

引用次数: 0

The ABF transcription factor TaABF2 interacts with TaSnRK2s to ameliorate drought tolerance in wheat. ABF转录因子TaABF2与TaSnRK2s相互作用，改善小麦的耐旱性。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-12-01 Epub Date: 2024-10-11 DOI: 10.1016/j.jgg.2024.09.022

Linying Du, Ming Yu, Qiannan Wang, Zhenbing Ma, Shumin Li, Li Ding, Fangfang Li, Weijun Zheng, Xiaojing Wang, Hude Mao

引用次数: 0