Journal of Systematics and Evolution最新文献

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Past, present, and future of mountain and island systems 山区和岛屿系统的过去、现在和未来
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-04-09 DOI: 10.1111/jse.13073
Alexandra N. Muellner‐Riehl, Fabien Anthelme, Thomas Ibanez
{"title":"Past, present, and future of mountain and island systems","authors":"Alexandra N. Muellner‐Riehl, Fabien Anthelme, Thomas Ibanez","doi":"10.1111/jse.13073","DOIUrl":"https://doi.org/10.1111/jse.13073","url":null,"abstract":"","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-04-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140589505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Dense infraspecific sampling reveals cryptic differentiation in the enigmatic hemiparasitic love vine Cassytha filiformis (Lauraceae) 密集的种下取样揭示了神秘的半寄生爱情藤 Cassytha filiformis(月桂科)的隐秘分化
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-04-01 DOI: 10.1111/jse.13069
Zhi‐Fang Liu, Shi‐Fang Zhang, Alex D. Twyford, Xiu‐Qin Ci, Lang Li, Xiao‐Yan Zhang, Jian‐Lin Hu, Jia‐Chuan Tan, Guang‐Da Tang, Sheng‐Yuan Qin, Ling Hu, Xin Ding, Hong‐Hu Meng, Li‐Na Dong, Ting Huang, Hui Ma, Jian‐Hua Xiao, Chao‐Nan Cai, John G. Conran, Qi Wang, Peter M. Hollingsworth, Jie Li
{"title":"Dense infraspecific sampling reveals cryptic differentiation in the enigmatic hemiparasitic love vine Cassytha filiformis (Lauraceae)","authors":"Zhi‐Fang Liu, Shi‐Fang Zhang, Alex D. Twyford, Xiu‐Qin Ci, Lang Li, Xiao‐Yan Zhang, Jian‐Lin Hu, Jia‐Chuan Tan, Guang‐Da Tang, Sheng‐Yuan Qin, Ling Hu, Xin Ding, Hong‐Hu Meng, Li‐Na Dong, Ting Huang, Hui Ma, Jian‐Hua Xiao, Chao‐Nan Cai, John G. Conran, Qi Wang, Peter M. Hollingsworth, Jie Li","doi":"10.1111/jse.13069","DOIUrl":"https://doi.org/10.1111/jse.13069","url":null,"abstract":"Species delimitation remains a challenge worldwide, especially in highly diverse tropical and subtropical regions. Here, we use an integrative approach that combines morphology, phylogenomics, and species distribution modeling (SDM) to clarify the cryptic differentiation within the enigmatic hemiparasitic love vine <jats:italic>Cassytha filiformis</jats:italic> (Lauraceae) in China and adjacent regions. We generated complete plastid genomes and nuclear ribosomal sequences for diverse samples from across the species range and compared results with previously published plastid data, recovering two well‐supported monophyletic clades. Further, the analysis revealed significant differences in two morphological characters and SDM, indicating distinct environmental factors influencing their distributions. Fossil‐calibrated analyses to estimate the origins and diversification patterns for the cryptic species gave divergence age estimates corresponding to the Oligo‐Miocene; a period of new ecological opportunities associated with the prevailing East Asian monsoon. Multivariate analyses support the conclusion that southern China and adjacent regions have a different, previously unknown, cryptic lineage of <jats:italic>C. filiformis</jats:italic>. Our study highlights the importance of using multivariate approach to characterize plant species, as well as the significant role that past climatic changes have played in driving speciation in parasitic plants in tropical and subtropical zones.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140589584","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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 near-complete genome assembly of Reynoutria multiflora reveals the genetic basis of stilbenes and anthraquinones biosynthesis Reynoutria multiflora 近乎完整的基因组组装揭示了二苯乙烯类和蒽醌类化合物生物合成的遗传基础
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-28 DOI: 10.1111/jse.13068
Qiang He, Yuqing Miao, Xinyuan Zheng, Yaru Wang, Yitao Wang, Zheng Jia, Hongyu Zhang, Yu Wang, Yao Xiao, Cailian Du, Wei Li, Longsheng Xing, Huilong Du
{"title":"The near-complete genome assembly of Reynoutria multiflora reveals the genetic basis of stilbenes and anthraquinones biosynthesis","authors":"Qiang He, Yuqing Miao, Xinyuan Zheng, Yaru Wang, Yitao Wang, Zheng Jia, Hongyu Zhang, Yu Wang, Yao Xiao, Cailian Du, Wei Li, Longsheng Xing, Huilong Du","doi":"10.1111/jse.13068","DOIUrl":"https://doi.org/10.1111/jse.13068","url":null,"abstract":"<i>Reynoutria multiflora</i> is a widely used medicinal plant in China. Its medicinal compounds are mainly stilbenes and anthraquinones which possess important pharmacological activities in anti-aging, anti-inflammatory and anti-oxidation, but their biosynthetic pathways are still largely unresolved. Here, we reported a near-complete genome assembly of <i>R. multiflora</i> consisting of 1.39 Gb with a contig N50 of 122.91 Mb and only one gap left. Genome evolution analysis revealed that two recent bursts of long terminal repeats (LTRs) contributed significantly to the increased genome size of <i>R. multiflora</i>, and numerous large chromosome rearrangements were observed between <i>R. multiflora</i> and <i>Fagopyrum tataricum</i> genomes. Comparative genomics analysis revealed that a recent whole-genome duplication specific to Polygonaceae led to a significant expansion of gene families associated with disease tolerance and the biosynthesis of stilbenes and anthraquinones in <i>R. multiflora</i>. Combining transcriptomic and metabolomic analyses, we elucidated the molecular mechanisms underlying the dynamic changes in content of medicinal ingredients in <i>R. multiflora</i> roots across different growth years. Additionally, we identified several putative key genes responsible for anthraquinone and stilbene biosynthesis. We identified a stilbene synthase gene <i>PM0G05131</i> highly expressed in roost, which may exhibit an important role in the accumulation of stilbenes in <i>R. multiflora</i>. These genomic data will expedite the discovery of anthraquinone and stilbenes biosynthesis pathways in medicinal plants.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140325754","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Revisiting Xylaria diversity in Southern China: Descriptions of 40 new species 重新审视华南地区的 Xylaria 多样性:40 个新物种的描述
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-26 DOI: 10.1111/jse.13058
Qi‐Rui Li, Kamran Habib, You‐Peng Wu, Si‐Han Long, Xu Zhang, Hong‐Min Hu, Qian‐Zhen Wu, Li‐Li Liu, Yan Lin, Xiang‐Chun Shen, Ji‐Chuan Kang
{"title":"Revisiting Xylaria diversity in Southern China: Descriptions of 40 new species","authors":"Qi‐Rui Li, Kamran Habib, You‐Peng Wu, Si‐Han Long, Xu Zhang, Hong‐Min Hu, Qian‐Zhen Wu, Li‐Li Liu, Yan Lin, Xiang‐Chun Shen, Ji‐Chuan Kang","doi":"10.1111/jse.13058","DOIUrl":"https://doi.org/10.1111/jse.13058","url":null,"abstract":"The genus <jats:italic>Xylaria</jats:italic> comprises a diverse group of fungi with a global distribution and significant ecological importance, known for being a source of bioactive secondary metabolites with antibacterial, antioxidative, anticarcinogenic, and additional properties. In this study, we present a comprehensive taxonomic revision of the species of <jats:italic>Xylaria</jats:italic> found in some parts of southern China, characterized by an extensive multilocus phylogeny analysis based on internal transcribed spacer (ITS), <jats:italic>TUB2</jats:italic> (β‐tubulin), and DNA‐directed RNA polymerase II subunit 2 (<jats:italic>rpb2</jats:italic>) gene regions. Morphological examination and detailed comparative analyses of the collected specimens were conducted to determine the distinctiveness of each species. The multilocus phylogeny approach allowed us to infer evolutionary relationships and assess species boundaries accurately, leading to the identification of 40 novel <jats:italic>Xylaria</jats:italic> species hitherto unknown to science. The newly described species are: <jats:italic>X. baoshanensis</jats:italic>, <jats:italic>X. bawanglingensis</jats:italic>, <jats:italic>X. botryoidalis</jats:italic>, <jats:italic>X. dadugangensis</jats:italic>, <jats:italic>X. doupengshanensis</jats:italic>, <jats:italic>X. fanglanii</jats:italic>, <jats:italic>X. glaucae</jats:italic>, <jats:italic>X. guizhouensis</jats:italic>, <jats:italic>X. japonica</jats:italic>, <jats:italic>X. jinghongensis</jats:italic>, <jats:italic>X. jinshanensis</jats:italic>, <jats:italic>X. kuankuoshuiensis</jats:italic>, <jats:italic>X. liboensis</jats:italic>, <jats:italic>X. negundinis</jats:italic>, <jats:italic>X. orbiculati</jats:italic>, <jats:italic>X. ovata</jats:italic>, <jats:italic>X. pseudoanisopleura</jats:italic>, <jats:italic>X. pseudocubensis</jats:italic>, <jats:italic>X. pseudobambusicola</jats:italic>, <jats:italic>X. pseudoglobosa</jats:italic>, <jats:italic>X. pseudohemisphaerica</jats:italic>, <jats:italic>X. pseudohypoxylon</jats:italic>, <jats:italic>X. puerensis</jats:italic>, <jats:italic>X. qianensis</jats:italic>, <jats:italic>X. qiongzhouensis</jats:italic>, <jats:italic>X. rhombostroma</jats:italic>, <jats:italic>X. serratifoliae</jats:italic>, <jats:italic>X. shishangensis</jats:italic>, <jats:italic>X. shuqunii</jats:italic>, <jats:italic>X. shuangjiangensis</jats:italic>, <jats:italic>X. sinensis</jats:italic>, <jats:italic>X. tongrenensis</jats:italic>, <jats:italic>X. umbellata</jats:italic>, <jats:italic>X. xishuiensis</jats:italic>, <jats:italic>X. yaorenshanensis</jats:italic>, <jats:italic>X. yinggelingensis</jats:italic>, <jats:italic>X. yumingii</jats:italic>, <jats:italic>X. yunnanensis</jats:italic>, <jats:italic>X. zangmui</jats:italic>, and <jats:italic>X. zonghuangii</jats:italic>. The study's findings shed light on the distinctiveness of the newly described species, supported by both morphological distinctions and ph","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140316648","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Spatial phylogenetics of grasses in the Southern Cone provides insights into ecology and evolution of the family in South America 南锥体地区禾本科植物的空间系统发生学为南美洲禾本科植物的生态学和进化提供了启示
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-18 DOI: 10.1111/jse.13067
Lone Aagesen, Diego L. Salariato, María A. Scataglini, Juan M. Acosta, Silvia S. Denham, Carolina Delfini
{"title":"Spatial phylogenetics of grasses in the Southern Cone provides insights into ecology and evolution of the family in South America","authors":"Lone Aagesen, Diego L. Salariato, María A. Scataglini, Juan M. Acosta, Silvia S. Denham, Carolina Delfini","doi":"10.1111/jse.13067","DOIUrl":"https://doi.org/10.1111/jse.13067","url":null,"abstract":"In this study, we explored the distributions of grass genera in the Southern Cone (SC) of South America, applying several phylogenetic diversity (PD) metrics and randomization tests. Grasses appear to have been present in South America since their early evolution as tropical understory species more than 60 Ma. During the course of evolution, grasses have adapted to all terrestrial biomes and become one of the most successful plant families on earth. At present, the SC contains nearly all terrestrial biomes and a wide range of humid to arid ecoregions. Analyzing 126.514 point occurrences and four plastid markers for 148 genera (91% of the native grass genera), we found that tropical humid regions hold the highest PD, with no observed bias in branch lengths. These results indicate that niche conservatism dominates the diversity pattern of grasses in the SC. We found significantly low PD in the Dry Chaco and in the Patagonian Steppe, which suggest ecological filtering in both warm and cold arid regions. The Patagonian Steppe also holds significantly longer branches than expected by chance, as the native grass flora is mainly composed of distantly related Pooideae genera with a northern hemisphere origin. Short branches are found in the Uruguayan Savanna, suggesting that these grasslands could be a cradle for grass diversity within the SC. The dated phylogeny supported the current view of a relatively recent evolution of the family within the SC, with most diversification taking place from the middle Miocene and onwards.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140170185","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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 Bryophyte Phylogeny Group: A revised familial classification system based on plastid phylogenomic data 苔藓植物系统发育组:基于质体系统发生组数据的修订科分类系统
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-13 DOI: 10.1111/jse.13063
Yun‐Feng Li, Lian Luo, Yang Liu, Qiang He, Ning‐Ning Yu, Naren Gaowa, Zhao‐Qin Yi, Jun‐Jie Wang, Wei Han, Tao Peng, Boon‐Chuan Ho, Xiaolan He, Li Zhang, Zhi‐Duan Chen, Yu Jia, Qing‐Hua Wang
{"title":"The Bryophyte Phylogeny Group: A revised familial classification system based on plastid phylogenomic data","authors":"Yun‐Feng Li, Lian Luo, Yang Liu, Qiang He, Ning‐Ning Yu, Naren Gaowa, Zhao‐Qin Yi, Jun‐Jie Wang, Wei Han, Tao Peng, Boon‐Chuan Ho, Xiaolan He, Li Zhang, Zhi‐Duan Chen, Yu Jia, Qing‐Hua Wang","doi":"10.1111/jse.13063","DOIUrl":"https://doi.org/10.1111/jse.13063","url":null,"abstract":"Bryophytes, a monophyletic group comprising three major lineages, diversified soon after the terrestrialization of land plants. However, their internal phylogenetic relationships remain controversial. In this study, we reconstructed the ordinal and familial phylogeny of bryophytes using the largest plastid data set to date, including 549 taxa that represent almost all known orders and two‐thirds of families. The strongly supported phylogenetic inference enabled us to propose in mosses seven newly segregated families, that is, Baldwiniellaceae, Calyptrochaetaceae, Ctenidiaceae, Herpetineuraceae, Isodrepaniaceae, Pseudotaxiphyllaceae, and Rozeaceae, and one reduced family, that is, Climaciaceae. We also transferred the liverwort family Calyculariaceae from Fossombroniales to Pelliales. Recent advancements in molecular phylogeny have revolutionized bryophyte classification, tending to be more fragmental. Hence, we further propose a revised familial classification system for bryophytes that includes 45 orders and 142 families in mosses, 23 orders and 85 families in liverworts, and five orders and five families in hornworts.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140127625","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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‐omics provides insights into genome evolution and betacyanin biosynthesis in halophyte of Suaeda salsa 多组学揭示 Suaeda salsa 盐生植物基因组进化和甜菜苷生物合成的奥秘
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-13 DOI: 10.1111/jse.13064
Xin Wang, Jiang‐Bao Xia, Jun‐Hong Bai, Shuo Yin, Wei Wang, Da‐Wei Wang, Xin‐Xin Yi, Sheng‐Hong Dai
{"title":"Multi‐omics provides insights into genome evolution and betacyanin biosynthesis in halophyte of Suaeda salsa","authors":"Xin Wang, Jiang‐Bao Xia, Jun‐Hong Bai, Shuo Yin, Wei Wang, Da‐Wei Wang, Xin‐Xin Yi, Sheng‐Hong Dai","doi":"10.1111/jse.13064","DOIUrl":"https://doi.org/10.1111/jse.13064","url":null,"abstract":"As an important halophyte in the Yellow River Delta, the Amaranthaceae C<jats:sub>3</jats:sub> <jats:italic>Suaeda salsa</jats:italic> (L.) Pall. has attracted much attention for the “red carpet” landscape, and could be simply divided into red and green phenotypes according to the betacyanin content in the fleshy leaves. However, <jats:italic>S. salsa</jats:italic> has not been sequenced yet, which limited people's understanding of this species at the molecular level. We constructed a high‐quality chromosome‐scale reference genome by combining high‐throughput sequencing, PacBio single molecule real‐time sequencing, and Hi‐C sequencing techniques with a genome size of 445.10 Mb and contigs N50 of 2.94 Mb. Through the annotation of the <jats:italic>S. salsa</jats:italic> genome, 298.76 Mb of the repetitive sequences and 23 965 protein‐coding genes were identified, of which the proportion of long terminal repeats type in the repetitive sequences was the most abundant, about 50.74% of the <jats:italic>S. salsa</jats:italic> genome. Comparative genomics indicated that <jats:italic>S. salsa</jats:italic> underwent a whole‐genome duplication event about 146.15 million years ago (Ma), and the estimated divergence time between <jats:italic>S. salsa</jats:italic> and <jats:italic>Suaeda aralocaspica</jats:italic> was about 16.9 Ma. A total of four betacyanins including betanidin, celosianin II, amaranthin and 6′‐O‐malonyl‐celosianin II were identified and purified in both phenotypes, while two significantly up‐regulated betacyanins (celosianin II and amaranthin) may be the main reason for the red color in red phenotype. In addition, we also performed transcriptomics and metabolomics in both phenotypes to explore the molecular mechanisms of pigment synthesis, and a series of structural genes and transcription factors concerning with betacyanin production were selected in <jats:italic>S. salsa</jats:italic>.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140127699","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Qineryangia, a new genus from the Hengduan Mountains and new insights into the phylogeny of the subtribe Crepidinae (Cichorieae, Asteraceae) 横断山脉的新属Qineryangia以及对Crepidinae(菊科)亚属系统发育的新认识
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-13 DOI: 10.1111/jse.13066
Lian‐Sheng Xu, Zhu‐Qiu Song, Shu‐Yuan Liao, You‐Sheng Chen
{"title":"Qineryangia, a new genus from the Hengduan Mountains and new insights into the phylogeny of the subtribe Crepidinae (Cichorieae, Asteraceae)","authors":"Lian‐Sheng Xu, Zhu‐Qiu Song, Shu‐Yuan Liao, You‐Sheng Chen","doi":"10.1111/jse.13066","DOIUrl":"https://doi.org/10.1111/jse.13066","url":null,"abstract":"The Crepidinae are the largest subtribe of the Cichorieae (Asteraceae). Debate remains over the circumscription and phylogeny of this subtribe, mainly due to its complex morphology and the poor phylogenetic signal provided by traditional Sanger sequencing markers. In this study, a well‐resolved phylogeny of the subtribe Crepidinae, consisting of seven highly supported clades, was obtained for the first time using nuclear data with a phylogenomics approach (Hyb‐Seq). Using this phylogeny along with other evidence, we propose a new taxonomic framework for the Crepidinae with seven lines and 29 genera, which merges subtribe Chondrillinae with the Crepidinae. We also describe a new monotypic genus, <jats:italic>Qineryangia</jats:italic>, that is characterized by broad involucres, loose imbricate phyllaries with wavy margins, and thick pappus bristles.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140127277","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Phylogenomics of Puya (Bromeliaceae): Evolution in the Andean slopes and sky island ecosystems Puya(凤梨科)的系统发生组学:安第斯山坡和天空岛生态系统的演变
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-08 DOI: 10.1111/jse.13062
Julián Aguirre-Santoro, Alejandro Zuluaga, Emma Stonesmyth, Julio Betancur, Rachel S. Jabaily
{"title":"Phylogenomics of Puya (Bromeliaceae): Evolution in the Andean slopes and sky island ecosystems","authors":"Julián Aguirre-Santoro, Alejandro Zuluaga, Emma Stonesmyth, Julio Betancur, Rachel S. Jabaily","doi":"10.1111/jse.13062","DOIUrl":"https://doi.org/10.1111/jse.13062","url":null,"abstract":"Phylogenomics enhances our understanding of plant radiations in the biodiverse Andes. Our study focuses on <i>Puya</i>, primarily Andean and a part of the Bromeliaceae family. Using a phylogenomic framework based on the Angiosperms353 probe set for 80 species, we explored <i>Puya</i>′s phenotypic evolution and biogeography. Divergence time analyses and ancestral area estimations suggested that <i>Puya</i> originated in Central Coastal Chile around 9 million years ago (Ma). Subsequently, it dispersed to the dry valleys of the Central Andes and Puna regions between 5–8 Ma, leading to the emergence of major lineages. Key events in the last 2–4 million years include the recolonization of Chilean lowlands and dispersal to the northern Andes via Peru's Jalcas, facilitating passage through the Huancabamba depression. This event gave rise to the high-elevation Northern Andes clade. Using phylogenetic comparative methods, we tested the hypothesis that adaptation to the Andes' island-like high-elevation ecosystems was facilitated by unique leaf and floral traits, life history, and inflorescence morphology. Our findings suggest correlations between inflorescence axis compression, protective bract overlap, and high-elevation living, potentially preventing reproductive structure freezing. Semelparity evolved exclusively at high elevations, although its precise adaptive value remains uncertain. Our framework offers insights into Andean evolution, highlighting that lineages adapted to life in dry ecosystems can easily transition to high-elevation biomes. It also underscores how the island-like nature of high-elevation ecosystems influences phenotypic evolution rates. Moreover, it opens avenues to explore genetic mechanisms underlying adaptation to extreme mountain conditions.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140073089","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Comparative analysis of 326 chloroplast genomes in Chinese jujube (Ziziphus jujuba): Structural variations, horizontal gene transfer events, and evolutionary patterns impacting its domestication from wild jujube 中国大枣(Ziziphus jujuba)326 个叶绿体基因组的比较分析:结构变异、水平基因转移事件以及影响从野生枣驯化而来的进化模式
IF 3.7 1区 生物学
Journal of Systematics and Evolution Pub Date : 2024-03-01 DOI: 10.1111/jse.13065
Meng Yang, Shu-Feng Zhang, Bin Li, Yun-Xin Lan, Yi-Han Yang, Meng-Jun Liu
{"title":"Comparative analysis of 326 chloroplast genomes in Chinese jujube (Ziziphus jujuba): Structural variations, horizontal gene transfer events, and evolutionary patterns impacting its domestication from wild jujube","authors":"Meng Yang, Shu-Feng Zhang, Bin Li, Yun-Xin Lan, Yi-Han Yang, Meng-Jun Liu","doi":"10.1111/jse.13065","DOIUrl":"https://doi.org/10.1111/jse.13065","url":null,"abstract":"Jujube (<i>Ziziphus jujuba</i> Mill.), renowned for its nutritional value and health benefits, is believed to have originated in the middle and lower reaches of the Yellow River in China, where it underwent domestication from wild jujube. Nonetheless, the evolutionary trajectory and species differentiation between wild jujube and cultivated jujube still require further elucidation. The chloroplast genome (plastome), characterized by its relatively lower mutation rate compared to the nuclear genome, serves as an excellent model for evolutionary and comparative genomic research. In this study, we analyzed 326 nonredundant plastomes, encompassing 133 jujube cultivars and 193 wild jujube genotypes distributed throughout China. Noteworthy variations in the large single copy region primarily account for the size differences among these plastomes, impacting the evolution from wild jujube to cultivated varieties. Horizontal gene transfer (HGT) unveiled a unique chloroplast-to-nucleus transfer event, with transferred fragments predominantly influencing the evolution of the nuclear genome while leaving the plastome relatively unaffected. Population genetics analysis revealed two distinct evolutionary pathways from wild jujube to cultivated jujube: one driven by natural selection with minimal human interference, and the other resulting from human domestication and cultivation. Molecular dating, based on phylogenetic analysis, supported the likelihood that wild jujube and cultivated jujube fall within the same taxonomic category, <i>Z. jujuba</i>. In summary, our study comprehensively examined jujube plastome structures and HGT events, simultaneously contributing novel insights into the intricate processes that govern the evolution and domestication of jujube species.","PeriodicalId":17087,"journal":{"name":"Journal of Systematics and Evolution","volume":null,"pages":null},"PeriodicalIF":3.7,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140011477","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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