Journal of Genetics and Genomics最新文献_第4页

Neolithic to Bronze Age human maternal genetic history in Yunnan, China. 中国云南新石器时代至青铜时代人类母系遗传史。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-27 DOI: 10.1016/j.jgg.2024.09.013

Xinyu Wei, Ming Zhang, Rui Min, Zhilong Jiang, Jiayang Xue, Zhonghua Zhu, Haibing Yuan, Xiaorui Li, Dongyue Zhao, Peng Cao, Feng Liu, Qingyan Dai, Xiaotian Feng, Ruowei Yang, Xiaohong Wu, Changcheng Hu, Minmin Ma, Xu Liu, Yang Wan, Fan Yang, Ranchao Zhou, Lihong Kang, Guanghui Dong, Wanjing Ping, Tianyi Wang, Bo Miao, Fan Bai, Yuxin Zheng, Yuxiao Liu, Melinda A Yang, Wenjun Wang, E Andrew Bennett, Qiaomei Fu

{"title":"Neolithic to Bronze Age human maternal genetic history in Yunnan, China.","authors":"Xinyu Wei, Ming Zhang, Rui Min, Zhilong Jiang, Jiayang Xue, Zhonghua Zhu, Haibing Yuan, Xiaorui Li, Dongyue Zhao, Peng Cao, Feng Liu, Qingyan Dai, Xiaotian Feng, Ruowei Yang, Xiaohong Wu, Changcheng Hu, Minmin Ma, Xu Liu, Yang Wan, Fan Yang, Ranchao Zhou, Lihong Kang, Guanghui Dong, Wanjing Ping, Tianyi Wang, Bo Miao, Fan Bai, Yuxin Zheng, Yuxiao Liu, Melinda A Yang, Wenjun Wang, E Andrew Bennett, Qiaomei Fu","doi":"10.1016/j.jgg.2024.09.013","DOIUrl":"https://doi.org/10.1016/j.jgg.2024.09.013","url":null,"abstract":"Yunnan in southwest China is a geographically and ethnically complex region at the intersection of southern China and Southeast Asia, and a focal point for human migrations. To clarify its maternal genetic history, we generated 152 complete mitogenomes from 17 Yunnan archaeological sites. Our results reveal distinct genetic histories segregated by geographical regions. Maternal lineages of ancient populations from northwestern and northern Yunnan exhibit closer affinities with past and present-day populations from northern East Asia and Tibet, providing important genetic evidence for the migration and interaction of populations along the Tibetan-Yi corridor since the Neolithic. Between 5500 to 1800 years ago, central Yunnan populations maintained their internal genetic relationships, including a 7000-year-old basal lineage of the rare and widely dispersed haplogroup M61. At the Xingyi site, changes in mitochondrial DNA haplogroups occurred between the Late Neolithic and Bronze Age, with haplogroups shifting from those predominant in the Yellow River region to those predominant in coastal southern China. These results highlight the high diversity of Yunnan populations during the Neolithic to Bronze Age.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":6.6,"publicationDate":"2024-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142332644","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 : 2024-09-26 DOI: 10.1016/j.jgg.2024.09.009

Jieran Chen, Haitao Wang, 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

Epigenetic control of plant abiotic stress responses. 植物非生物胁迫反应的表观遗传控制。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-23 DOI: 10.1016/j.jgg.2024.09.008

Lijun Ma, Lihe Xing, Zicong Li, Danhua Jiang

引用次数: 0

Age-dependent genetic architectures of chicken body weight explored by multidimensional GWAS and molQTL analyses. 通过多维 GWAS 和 molQTL 分析探索鸡体重随年龄变化的遗传结构。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-19 DOI: 10.1016/j.jgg.2024.09.003

Conghao Zhong, Xiaochang Li, Dailu Guan, Boxuan Zhang, Xiqiong Wang, Liang Qu, Huaijun Zhou, Lingzhao Fang, Congjiao Sun, Ning Yang

{"title":"Age-dependent genetic architectures of chicken body weight explored by multidimensional GWAS and molQTL analyses.","authors":"Conghao Zhong, Xiaochang Li, Dailu Guan, Boxuan Zhang, Xiqiong Wang, Liang Qu, Huaijun Zhou, Lingzhao Fang, Congjiao Sun, Ning Yang","doi":"10.1016/j.jgg.2024.09.003","DOIUrl":"10.1016/j.jgg.2024.09.003","url":null,"abstract":"Chicken body weight (BW) is a critical trait in breeding. Although genetic variants associated with BW have been investigated by genome-wide association studies (GWAS), the contributions of causal variants and their molecular mechanisms remain largely unclear in chickens. In this study, we construct a comprehensive genetic atlas of chicken BW by integrative analysis of 30 age points and 5 quantitative trait loci (QTL) across 27 tissues. We find that chicken growth is a cumulative non-linear process, which can be divided into three distinct stages. Our GWAS analysis reveals that BW-related genetic variations show ordered patterns in these three stages. Genetic variations in chromosome 1 may regulate the overall growth process, likely by modulating the hypothalamus-specific expression of SLC25A30 and retina-specific expression of NEK3. Moreover, genetic variations in chromosome 4 and chromosome 27 may play dominant roles in regulating BW during Stage Ⅱ (8-22 weeks) and Stage Ⅲ (23-72 weeks), respectively. In summary, our study presents a comprehensive genetic atlas regulating developmental stage-specific changes in chicken BW, thus providing important resources for genomic selection in breeding programs.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":6.6,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142301286","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

Nanopore sequencing: flourishing in its teenage years. 纳米孔测序：正值青春年华。

IF 5.9 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-16 DOI: 10.1016/j.jgg.2024.09.007

Tianyuan Zhang,Hanzhou Li,Mian Jiang,Huiyu Hou,Yunyun Gao,Yali Li,Fuhao Wang,Jun Wang,Kai Peng,Yong-Xin Liu

{"title":"Nanopore sequencing: flourishing in its teenage years.","authors":"Tianyuan Zhang,Hanzhou Li,Mian Jiang,Huiyu Hou,Yunyun Gao,Yali Li,Fuhao Wang,Jun Wang,Kai Peng,Yong-Xin Liu","doi":"10.1016/j.jgg.2024.09.007","DOIUrl":"https://doi.org/10.1016/j.jgg.2024.09.007","url":null,"abstract":"Over the past decade, nanopore sequencing has experienced significant advancements and changes, transitioning from an initially emerging technology to a significant instrument in the field of genomic sequencing. However, as advancements in next-generation sequencing technology persist, nanopore sequencing also improves. This paper reviews the developments, applications, and outlook on nanopore sequencing technology. Currently, nanopore sequencing supports both DNA and RNA sequencing, making it widely applicable in areas such as telomere-to-telomere (T2T) genome assembly, direct RNA sequencing (DRS), and metagenomics. The openness and versatility of nanopore sequencing have established it as a preferred option for an increasing number of research teams, signaling a transformative influence on life science research. As nanopore sequencing technology advances, it provides a faster, more cost-effective approach with extended read lengths, demonstrating the significant potential for complex genome assembly, pathogen detection, environmental monitoring, and human disease research, offering a fresh perspective in sequencing technologies.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":5.9,"publicationDate":"2024-09-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142253268","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

The future of zebrafish research: highlights from the 18th International Zebrafish Conference. 斑马鱼研究的未来：第 18 届国际斑马鱼大会亮点。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-14 DOI: 10.1016/j.jgg.2024.09.006

Chenyang Bian, Dongyuan Ma, Feng Liu

引用次数: 0

CancerSRT: A spatially resolved transcriptomics database for human cancers. CancerSRT：人类癌症空间解析转录组学数据库。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-12 DOI: 10.1016/j.jgg.2024.08.012

Yuying Huo, Jiakang Wang, Chengcheng Liu, Jinxia Wang, Chen Wang, Wenbo Guo, Zhiyuan Yuan, Tiantian Guo, Jin Gu, Xiangyu Li

引用次数: 0

CtIP regulates G2/M transition and bipolar spindle assembly during mouse oocyte meiosis. CtIP调节小鼠卵母细胞减数分裂过程中的G2/M转换和双极纺锤体组装。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-12 DOI: 10.1016/j.jgg.2024.09.005

Wei Yue, Hong-Yong Zhang, Heide Schatten, Tie-Gang Meng, Qing-Yuan Sun

{"title":"CtIP regulates G2/M transition and bipolar spindle assembly during mouse oocyte meiosis.","authors":"Wei Yue, Hong-Yong Zhang, Heide Schatten, Tie-Gang Meng, Qing-Yuan Sun","doi":"10.1016/j.jgg.2024.09.005","DOIUrl":"https://doi.org/10.1016/j.jgg.2024.09.005","url":null,"abstract":"CtBP-interacting protein (CtIP) is known for its multifaceted roles in DNA repair and genomic stability, directing the homologous recombination-mediated DNA double-stranded break (DSBs) repair pathway via DNA end resection, an essential error-free repair process vital for genome stability. Mammalian oocytes are highly prone to DNA damage accumulation due to prolonged G2/prophase arrest. Here, we explore the functions of CtIP in meiotic cell cycle regulation via a mouse oocyte model. Depletion of CtIP by siRNA injection results in delayed germinal vesicle breakdown and failed polar body extrusion. Mechanistically, CtIP deficiency increases DNA damage and decreases the expression and nuclear entry of CCNB1, resulting in marked impairment of meiotic resumption, which can be rescued by exogenous CCNB1 overexpression. Furthermore, depletion of CtIP disrupts MTOCs coalescence at spindle poles as indicated by failed accumulation of γ-tubulin, p-Aurora kinase A, Kif2A, and TPX2, leading to abnormal spindle assembly and prometaphase arrest. These results provide valuable insights into the important roles of CtIP in the G2/M checkpoint and spindle assembly in mouse oocyte meiotic cell cycle regulation.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":6.6,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142301288","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

ERVcancer: A web resource designed for querying activation of human endogenous retroviruses across major cancer types ERVcancer：用于查询主要癌症类型中人类内源性逆转录病毒激活情况的网络资源

IF 5.9 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-10 DOI: 10.1016/j.jgg.2024.09.004

Xiaoyun Lei, Song Mao, Yinshuang Li, Shi Huang, Jinchen Li, Wei Du, Chunmei Kuang, Kai Yuan

{"title":"ERVcancer: A web resource designed for querying activation of human endogenous retroviruses across major cancer types","authors":"Xiaoyun Lei, Song Mao, Yinshuang Li, Shi Huang, Jinchen Li, Wei Du, Chunmei Kuang, Kai Yuan","doi":"10.1016/j.jgg.2024.09.004","DOIUrl":"https://doi.org/10.1016/j.jgg.2024.09.004","url":null,"abstract":"Human endogenous retroviruses (HERVs) comprise approximately 8% of the human genome, co-opted into the dynamic regulatory network of cellular potency in early embryonic development. In recent studies, resurgent HERVs' transcriptional activity has been frequently observed in many types of human cancers, suggesting their potential functions in the occurrence and progression of malignancy. However, a dedicated web resource for querying the relationship between activation of HERVs and cancer development is lacking. Here, we have constructed a database to explore the sequence information, expression profiles, survival prognosis, and genetic interactions of HERVs in diverse cancer types. Our database currently contains RNA sequencing data of 580 HERVs across 16,246 samples, including that of 6478 tumoral and 634 normal tissues, 932 cancer cell lines, as well as 151 early embryonic and 8051 human adult tissues. The primary goal is to provide an easily accessible and user-friendly database for professionals in the fields of bioinformatics, pathology, pharmacology, and related areas, enabling them to efficiently screen the activity of HERVs of interest in normal and cancerous tissues and evaluate the clinical relevance. The ERVcancer database is available at .","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":null,"pages":null},"PeriodicalIF":5.9,"publicationDate":"2024-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142253265","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

Foxc1b regulates brain pericyte proliferation in zebrafish larvae. Foxc1b调控斑马鱼幼体中脑周细胞的增殖

IF 5.9 2区生物学

Journal of Genetics and Genomics Pub Date : 2024-09-09 DOI: 10.1016/j.jgg.2024.09.002

Huaxing Zi,Xiaolan Peng,Xiulian Shen,Minjia Chen,Ye Hua,Jia Li,Le Sun,Hongyu Li,Qiusui Deng,Jiulin Du

引用次数: 0