期刊
G3-GENES GENOMES GENETICS
卷 7, 期 9, 页码 3157-3167出版社
GENETICS SOCIETY AMERICA
DOI: 10.1534/g3.117.300078
关键词
gymnosperm; mega-genome; conifer; genome assembly; shade tolerance; annotation
资金
- United States Department of Agriculture/National Institute of Food and Agriculture [2011-67009-30030]
- NIFA [687516, 2011-67009-30030] Funding Source: Federal RePORTER
A reference genome sequence for Pseudotsuga menziesii var. menziesii (Mirb.) Franco (Coastal Douglas-fir) is reported, thus providing a reference sequence for a third genus of the family Pinaceae. The contiguity and quality of the genome assembly far exceeds that of other conifer reference genome sequences (contig N50 = 44,136 bp and scaffold N50 = 340,704 bp). Incremental improvements in sequencing and assembly technologies are in part responsible for the higher quality reference genome, but it may also be due to a slightly lower exact repeat content in Douglas-fir vs. pine and spruce. Comparative genome annotation with angiosperm species reveals gene-family expansion and contraction in Douglas-fir and other conifers which may account for some of the major morphological and physiological differences between the two major plant groups. Notable differences in the size of the NDH-complex gene family and genes underlying the functional basis of shade tolerance/intolerance were observed. This reference genome sequence not only provides an important resource for Douglas-fir breeders and geneticists but also sheds additional light on the evolutionary processes that have led to the divergence of modern angiosperms from the more ancient gymnosperms.
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