The genomic and epigenetic footprint of local adaptation to variable climates in kiwifruit
作者机构：CAS Key Laboratory of Plant Germplasm Enhancement and Specialty AgricultureWuhan Botanical Gardenthe Chinese Academy of SciencesWuhan 430074HubeiChina College of Life SciencesUniversity of Chinese Academy of SciencesBeijing 100049China School of Integrative Plant ScienceSection of Plant Biology and the L.H.Bailey HortoriumCornell UniversityIthacaNY 14853 USA BTI Computational Biology CenterBoyce Thompson InstituteIthacaNY 14853USA
出 版 物：《Horticulture Research》 (园艺研究（英文）)
年 卷 期：2023年第10卷第4期
页 面：147-160页
核心收录：
学科分类：09[农学] 0902[农学-园艺学] 090201[农学-果树学]
基 金：funded by the National Natural Science Foundation of China(grants 31770374 and 32070377) the Key Projects of the Joint Fund of the National Natural Science Foundation of China(grant U1802232)
主 题：local adaptation shaped
摘 要：A full understanding of adaptive genetic variation at the genomic level will help address questions of how organisms adapt to diverse *** eriantha is a shade-tolerant species,widely distributed in the southern tropical region of China,occurring in spatially heterogeneous *** the present study we combined population genomic,epigenomic,and environmental association analyses to infer population genetic structure and positive selection across a climatic gradient,and to assess genomic offset to climatic change for *** population structure is strongly shaped by geography and influenced by restricted gene f low resulting from isolation by distance due to habitat *** total,we identified 102 outlier loci and annotated 455 candidate genes associated with the genomic basis of climate adaptation,which were enriched in functional categories related to development processes and stress response;both temperature and precipitation are important factors driving adaptive *** addition to single-nucleotide polymorphisms(SNPs),a total of 27 single-methylation variants(SMVs)had significant correlation with at least one of four climatic variables and 16 SMVswere located in or adjacent to genes,several of whichwere predicted to be involved in plant response to abiotic or biotic *** forest analysis indicated that the central/east populations were predicted to be at higher risk of future population maladaptation under climate *** results demonstrate that local climate factors impose strong selection pressures and lead to local *** information adds to our understanding of adaptive mechanisms to variable climates revealed by both population genome and epigenome analysis.
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