The impact of third generation genomic technologies on plant genome assembly.
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TLDR
Since the introduction of next generation sequencing, plant genome assembly projects do not need to rely on dedicated research facilities or community-wide consortia anymore, even individual research groups can sequence and assemble the genomes they are interested in.About:
This article is published in Current Opinion in Plant Biology.The article was published on 2017-04-01 and is currently open access. It has received 170 citations till now. The article focuses on the topics: Hybrid genome assembly & Sequence assembly.read more
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The genomics of local adaptation in trees: are we out of the woods yet?
TL;DR: The success of future endeavors should not be predicated on the shortcomings of past studies and will instead be dependent upon the application of theory to empiricism, standardized reporting, centralized open-access databases, and continual input and review of the community’s research.
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Nanopore sequencing-based genome assembly and evolutionary genomics of circum-basmati rice
Jae Young Choi,Zoe N. Lye,Simon C. Groen,Xiaoguang Dai,Priyesh Rughani,Sophie Zaaijer,Eoghan D. Harrington,Sissel Juul,Michael D. Purugganan,Michael D. Purugganan +9 more
TL;DR: The availability of high-quality reference genomes allows functional and evolutionary genomic analyses providing genome-wide evidence for gene flow between circum-aus and circum-Basmati, describes the nature of circum-basmati structural variation, and reveals the presence/absence variation in this important and iconic rice variety group.
Journal ArticleDOI
A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome.
Sampath Perumal,Chu Shin Koh,Lingling Jin,Miles Buchwaldt,Erin E. Higgins,Chunfang Zheng,David Sankoff,Stephen J. Robinson,Sateesh Kagale,Zahra-Katy Navabi,Zahra-Katy Navabi,Lily Tang,Kyla N. Horner,Zhesi He,Ian Bancroft,Boulos Chalhoub,Andrew G. Sharpe,Isobel A. P. Parkin +17 more
TL;DR: Two high-quality nanopore genome assemblies of Brassica nigra are reported, one of which has particularly high contiguity with a contig N50 of 17.1 Mb, allowing localization of active centromeres and reconstruction of the ancestral Brassica genome.
Journal ArticleDOI
Draft genome sequence of wild Prunus yedoensis reveals massive inter-specific hybridization between sympatric flowering cherries.
Seunghoon Baek,Kyung Choi,Goon-Bo Kim,Hee-Ju Yu,Ara Cho,Hoyeol Jang,Changkyun Kim,Hyuk-Jin Kim,Kae Sun Chang,Joo-Hwan Kim,Jeong-Hwan Mun +10 more
TL;DR: It appears that cross-species hybridization in sympatric habitats is an ongoing process that facilitates the diversification of flowering Prunus and reduced restriction of inter-specific hybridization due to strong gametophytic self-incompatibility is likely to promote complex hybridization of wild Prinus species and the development of a hybrid swarm.
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TL;DR: The sequence of the maize genome reveals it to be the most complex genome known to date and the correlation of methylation-poor regions with Mu transposon insertions and recombination and how uneven gene losses between duplicated regions were involved in returning an ancient allotetraploid to a genetically diploid state is reported.
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The map-based sequence of the rice genome
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TL;DR: A map-based, finished quality sequence that covers 95% of the 389 Mb rice genome, including virtually all of the euchromatin and two complete centromeres, and finds evidence for widespread and recurrent gene transfer from the organelles to the nuclear chromosomes.