Genetics最新文献_第6页

Transformation of meiotic drive into hybrid sterility in Drosophila. 果蝇减数分裂驱动力转化为杂交不育。

IF 3.3 3区生物学

Genetics Pub Date : 2024-10-07 DOI: 10.1093/genetics/iyae133

Jackson Bladen, Hyuck-Jin Nam, Nitin Phadnis

引用次数: 0

Automated multimodal imaging of Caenorhabditis elegans behavior in multi-well plates. 在多孔板中对秀丽隐杆线虫的行为进行自动多模式成像。

IF 3.3 3区生物学

Genetics Pub Date : 2024-10-03 DOI: 10.1093/genetics/iyae158

Hongfei Ji, Dian Chen, Christopher Fang-Yen

引用次数: 0

Genealogical asymmetry under the IM model and a two-taxon test for gene flow. IM 模型下的家谱不对称和基因流动的双染色体检验。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-30 DOI: 10.1093/genetics/iyae157

Alexander Mackintosh, Derek Setter

{"title":"Genealogical asymmetry under the IM model and a two-taxon test for gene flow.","authors":"Alexander Mackintosh, Derek Setter","doi":"10.1093/genetics/iyae157","DOIUrl":"https://doi.org/10.1093/genetics/iyae157","url":null,"abstract":"Methods for detecting gene flow between populations often rely on asymmetry in the average length of particular genealogical branches, with the ABBA-BABA test being a well known example. Currently, asymmetry-based methods cannot be applied to a pair of populations and such analyses are instead performed using model-based methods. Here we investigate genealogical asymmetry under a two-population Isolation with Migration model. We focus on genealogies where the first coalescence event is between lineages sampled from different populations, as the external branches of these genealogies have equal expected length as long as there is no post-divergence gene flow. We show that unidirectional gene flow breaks this symmetry and results in the recipient population having longer external branches. We derive expectations for the probability of this genealogical asymmetry and propose a simple statistic (Am) to detect it from genome sequence data. Am provides a two-taxon test for gene flow that only requires a single unphased diploid genome from each population, with no outgroup information. We use analytic expectations and simulations to explore how recombination, unequal effective population sizes, bidirectional gene flow and background selection influence Am and find that the statistic provides unambiguous evidence for gene flow under a continent-island history. We estimate Am for genome sequence data from Heliconius butterflies and Odocoileus deer, generating results consistent with previous model-based analyses. Our work highlights a signal of gene flow overlooked to date and provides a method that complements existing approaches for investigating the demographic history of recently diverged populations.","PeriodicalId":48925,"journal":{"name":"Genetics","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142330528","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Admixture in the fungal pathogen Blastomyces. 真菌病原体 Blastomyces 中的混合物。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-24 DOI: 10.1093/genetics/iyae155

Gaston I Jofre, Andrius J Dagilis, Victoria E Sepúlveda, Tayte Anspach, Ashutosh Singh, Anuradha Chowdhary, Daniel R Matute

引用次数: 0

Correction to: Fixation times of de novo and standing beneficial variants in subdivided populations. 更正：细分人群中新变体和常存有益变体的固定时间。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae123

引用次数: 0

Gene expression and splicing QTL analysis of blood cells in African American participants from the Jackson Heart Study. 杰克逊心脏研究非裔美国人血细胞基因表达和剪接 QTL 分析。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae098

Jia Wen, Quan Sun, Le Huang, Lingbo Zhou, Margaret F Doyle, Lynette Ekunwe, Peter Durda, Nels C Olson, Alexander P Reiner, Yun Li, Laura M Raffield

引用次数: 0

Overlapping coactivator function is required for transcriptional activation by the Candida glabrata Pdr1 transcription factor. 念珠菌 Pdr1 转录因子的转录激活需要重叠的辅激活因子功能。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae115

Thomas P Conway, Lucia Simonicova, W Scott Moye-Rowley

{"title":"Overlapping coactivator function is required for transcriptional activation by the Candida glabrata Pdr1 transcription factor.","authors":"Thomas P Conway, Lucia Simonicova, W Scott Moye-Rowley","doi":"10.1093/genetics/iyae115","DOIUrl":"10.1093/genetics/iyae115","url":null,"abstract":"Azole resistance in the pathogenic yeast Candida glabrata is a serious clinical complication and increasing in frequency. The majority of resistant organisms have been found to contain a substitution mutation in the Zn2Cys6 zinc cluster-containing transcription factor Pdr1. These mutations typically lead to this factor driving high, constitutive expression of target genes like the ATP-binding cassette transporter-encoding gene CDR1. Overexpression of Cdr1 is required for the observed elevated fluconazole resistance exhibited by strains containing one of these hyperactive PDR1 alleles. While the identity of hyperactive PDR1 alleles has been extensively documented, the mechanisms underlying how these gain-of-function (GOF) forms of Pdr1 lead to elevated target gene transcription are not well understood. We have used a tandem affinity purification-tagged form of Pdr1 to identify coactivator proteins that biochemically purify with the wild-type and 2 different GOF forms of Pdr1. Three coactivator proteins were found to associate with Pdr1: the SWI/SNF complex Snf2 chromatin remodeling protein and 2 different components of the SAGA complex, Spt7 and Ngg1. We found that deletion mutants lacking either SNF2 or SPT7 exhibited growth defects, even in the absence of fluconazole challenge. To overcome these issues, we employed a conditional degradation system to acutely deplete these coactivators and determined that loss of either coactivator complex, SWI/SNF or SAGA, caused defects in Pdr1-dependent transcription. A double degron strain that could be depleted for both SWI/SNF and SAGA exhibited a profound defect in PDR1 autoregulation, revealing that these complexes work together to ensure high-level Pdr1-dependent gene transcription.","PeriodicalId":48925,"journal":{"name":"Genetics","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141727968","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

Tetraploid interspecific hybrids between Asian and African rice species restore fertility depending on killer-protector loci for hybrid sterility. 亚洲和非洲水稻物种间的四倍体种间杂交种依靠杂交不育的杀手保护基因座恢复生育能力。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae104

Daichi Kuniyoshi, Megumi Ishihara, Koichi Yamamori, Yohei Koide, Yuji Kishima

{"title":"Tetraploid interspecific hybrids between Asian and African rice species restore fertility depending on killer-protector loci for hybrid sterility.","authors":"Daichi Kuniyoshi, Megumi Ishihara, Koichi Yamamori, Yohei Koide, Yuji Kishima","doi":"10.1093/genetics/iyae104","DOIUrl":"10.1093/genetics/iyae104","url":null,"abstract":"Interspecific F1 hybrids between Asian (Oryza sativa) and African rice (Oryza glaberrima) exhibit severe sterility caused by the accumulation of hybrid sterility genes/loci at 15 or more loci. The mechanisms underlying the hybrid sterility genes are largely unknown; however, a few genes associated with the killer-protector system, which is the system most frequently associated with hybrid sterility genes, have been identified. We previously produced fertile plants as tetraploids derived from diploid interspecific F1 hybrids through anther culture; therefore, it was suggested that hybrid sterility could be overcome following tetraploidization. We investigated whether tetraploid interspecific plants produced by crossing are fertile and tested the involvement of hybrid sterility genes in the process. Fertile tetraploid interspecific F1 hybrid plants were obtained by crossing 2 tetraploids of O. sativa and O. glaberrima. To elucidate the relationships between pollen fertility and the hybrid sterility loci in the tetraploid F1 microspores, we performed genetic analyses of the tetraploid F2 hybrids and diploid plants obtained from the microspores of tetraploid interspecific hybrids by anther culture. The result suggested that the tetraploid interspecific hybrids overcame pollen and seed infertility based on the proportion of loci with the killer-protector system present in the tetraploids. The heterozygous hybrid sterility loci with the killer-protector system in the tetraploid segregate the homozygous killed allele (16.7-21.4%), with more than three-quarters of the gametes surviving. We theoretically and experimentally demonstrated that fertile rice progenies can be grown from tetraploid interspecific hybrids.","PeriodicalId":48925,"journal":{"name":"Genetics","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141471823","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"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

An acidic loop in the forkhead-associated domain of the yeast meiosis-specific kinase Mek1 interacts with a specific motif in a subset of Mek1 substrates. 酵母减数分裂特异性激酶 Mek1 的 FHA 结构域中的一个酸性环与 Mek1 底物亚群中的一个特定图案相互作用。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae106

Qixuan Weng, Lihong Wan, Geburah C Straker, Tom D Deegan, Bernard P Duncker, Aaron M Neiman, Ed Luk, Nancy M Hollingsworth

{"title":"An acidic loop in the forkhead-associated domain of the yeast meiosis-specific kinase Mek1 interacts with a specific motif in a subset of Mek1 substrates.","authors":"Qixuan Weng, Lihong Wan, Geburah C Straker, Tom D Deegan, Bernard P Duncker, Aaron M Neiman, Ed Luk, Nancy M Hollingsworth","doi":"10.1093/genetics/iyae106","DOIUrl":"10.1093/genetics/iyae106","url":null,"abstract":"The meiosis-specific kinase Mek1 regulates key steps in meiotic recombination in the budding yeast, Saccharomyces cerevisiae. MEK1 limits resection at double-strand break (DSB) ends and is required for preferential strand invasion into homologs, a process known as interhomolog bias. After strand invasion, MEK1 promotes phosphorylation of the synaptonemal complex protein Zip1 that is necessary for DSB repair mediated by a crossover-specific pathway that enables chromosome synapsis. In addition, Mek1 phosphorylation of the meiosis-specific transcription factor, Ndt80, regulates the meiotic recombination checkpoint that prevents exit from pachytene when DSBs are present. Mek1 interacts with Ndt80 through a 5-amino acid sequence, RPSKR, located between the DNA-binding and activation domains of Ndt80. AlphaFold Multimer modeling of a fragment of Ndt80 containing the RPSKR motif and full-length Mek1 indicated that RPSKR binds to an acidic loop located in the Mek1 FHA domain, a noncanonical interaction with this motif. A second protein, the 5'-3' helicase Rrm3, similarly interacts with Mek1 through an RPAKR motif and is an in vitro substrate of Mek1. Genetic analysis using various mutants in the MEK1 acidic loop validated the AlphaFold model, in that they specifically disrupt 2-hybrid interactions with Ndt80 and Rrm3. Phenotypic analyses further showed that the acidic loop mutants are defective in the meiotic recombination checkpoint and, in certain circumstances, exhibit more severe phenotypes compared to the NDT80 mutant with the RPSKR sequence deleted, suggesting that additional, as yet unknown, substrates of Mek1 also bind to Mek1 using an RPXKR motif.","PeriodicalId":48925,"journal":{"name":"Genetics","volume":null,"pages":null},"PeriodicalIF":3.3,"publicationDate":"2024-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11373509/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141560154","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Chk2 homolog Mek1 limits exonuclease 1-dependent DNA end resection during meiotic recombination in Saccharomyces cerevisiae. Chk2 同源物 Mek1 限制了 S. cerevisiae 中减数分裂重组过程中 Exo1 依赖性 DNA 末端切除。

IF 3.3 3区生物学

Genetics Pub Date : 2024-09-04 DOI: 10.1093/genetics/iyae112

Jennifer T Krystosek, Douglas K Bishop

引用次数: 0