期刊
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
卷 115, 期 46, 页码 E10970-E10978出版社
NATL ACAD SCIENCES
DOI: 10.1073/pnas.1801437115
关键词
genome assembly; natural selection; coexpression; population genetics; Populus
资金
- Knut and Alice Wallenberg Foundation
- Umea Plant Science Centre Berzelii Centre
- Stiftelsen for Strategisk Forskning Centre for Plant Developmental Biology
- Kempe Foundation
- Swedish Research Council Vetenskapsradet
- Research and Development Program for Forestry Technology by Korea Forest Service [S111414L070110]
- Stiftelsen Oscar och Lili Lamms Minne [SY2013-0009]
- Chinese Scholarship Council
- Knut and Alice Wallenberg Foundation as part of the NBIS at SciLifeLab
- Umea University
- Trees and Crops for the Future project
- European Union Seventh Framework Programme (FP7/2007-2013) under European Research Council [322739-DOUBLEUP]
- Korea Forest Service [S111414L070110] Funding Source: Korea Institute of Science & Technology Information (KISTI), National Science & Technology Information Service (NTIS)
The Populus genus is one of the major plant model systems, but genomic resources have thus far primarily been available for poplar species, and primarily Populus trichocarpa (Torr. & Gray), which was the first tree with a whole-genome assembly. To further advance evolutionary and functional genomic analyses in Populus, we produced genome assemblies and population genetics resources of two aspen species, Populus tremula L. and Populus tremuloides Michx. The two aspen species have distributions spanning the Northern Hemisphere, where they are keystone species supporting a wide variety of dependent communities and produce a diverse array of secondary metabolites. Our analyses show that the two aspens share a similar genome structure and a highly conserved gene content with P. trichocarpa but display substantially higher levels of heterozygosity. Based on population resequencing data, we observed widespread positive and negative selection acting on both coding and noncoding regions. Furthermore, patterns of genetic diversity and molecular evolution in aspen are influenced by a number of features, such as expression level, coexpression network connectivity, and regulatory variation. To maximize the community utility of these resources, we have integrated all presented data within the PopGenIE web resource (popGenIE.org).
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