Literature DB >> 28226237

Novel Insights into Tree Biology and Genome Evolution as Revealed Through Genomics.

David B Neale1, Pedro J Martínez-García1, Amanda R De La Torre1, Sara Montanari1, Xiao-Xin Wei2.   

Abstract

Reference genome sequences are the key to the discovery of genes and gene families that determine traits of interest. Recent progress in sequencing technologies has enabled a rapid increase in genome sequencing of tree species, allowing the dissection of complex characters of economic importance, such as fruit and wood quality and resistance to biotic and abiotic stresses. Although the number of reference genome sequences for trees lags behind those for other plant species, it is not too early to gain insight into the unique features that distinguish trees from nontree plants. Our review of the published data suggests that, although many gene families are conserved among herbaceous and tree species, some gene families, such as those involved in resistance to biotic and abiotic stresses and in the synthesis and transport of sugars, are often expanded in tree genomes. As the genomes of more tree species are sequenced, comparative genomics will further elucidate the complexity of tree genomes and how this relates to traits unique to trees.

Entities:  

Keywords:  adaptation; fruit quality; genome size; perennialism; transposable elements; woody plants

Mesh:

Year:  2017        PMID: 28226237     DOI: 10.1146/annurev-arplant-042916-041049

Source DB:  PubMed          Journal:  Annu Rev Plant Biol        ISSN: 1543-5008            Impact factor:   26.379


  13 in total

1.  The Manchurian Walnut Genome: Insights into Juglone and Lipid Biosynthesis.

Authors:  Xiang Li; Kewei Cai; Qinhui Zhang; Xiaona Pei; Song Chen; Luping Jiang; Zhiming Han; Minghui Zhao; Yan Li; Xinxin Zhang; Yuxi Li; Shikai Zhang; Su Chen; Guanzheng Qu; Mulualem Tigabu; Vincent L Chiang; Ronald Sederoff; Xiyang Zhao
Journal:  Gigascience       Date:  2022-06-28       Impact factor: 7.658

2.  Sequencing a Juglans regia × J. microcarpa hybrid yields high-quality genome assemblies of parental species.

Authors:  Tingting Zhu; Le Wang; Frank M You; Juan C Rodriguez; Karin R Deal; Limin Chen; Jie Li; Sandeep Chakraborty; Bipin Balan; Cai-Zhong Jiang; Patrick J Brown; Charles A Leslie; Mallikarjuna K Aradhya; Abhaya M Dandekar; Patrick E McGuire; Daniel Kluepfel; Jan Dvorak; Ming-Cheng Luo
Journal:  Hortic Res       Date:  2019-03-25       Impact factor: 6.793

Review 3.  Apple whole genome sequences: recent advances and new prospects.

Authors:  Cameron P Peace; Luca Bianco; Michela Troggio; Eric van de Weg; Nicholas P Howard; Amandine Cornille; Charles-Eric Durel; Sean Myles; Zoë Migicovsky; Robert J Schaffer; Evelyne Costes; Gennaro Fazio; Hisayo Yamane; Steve van Nocker; Chris Gottschalk; Fabrizio Costa; David Chagné; Xinzhong Zhang; Andrea Patocchi; Susan E Gardiner; Craig Hardner; Satish Kumar; Francois Laurens; Etienne Bucher; Dorrie Main; Sook Jung; Stijn Vanderzande
Journal:  Hortic Res       Date:  2019-04-05       Impact factor: 6.793

4.  Genomic analysis reveals rich genetic variation and potential targets of selection during domestication of castor bean from perennial woody tree to annual semi-woody crop.

Authors:  Wei Xu; Tianquan Yang; Lijun Qiu; Mark A Chapman; De-Zhu Li; Aizhong Liu
Journal:  Plant Direct       Date:  2019-10-21

5.  Environmental Genome-Wide Association Reveals Climate Adaptation Is Shaped by Subtle to Moderate Allele Frequency Shifts in Loblolly Pine.

Authors:  Amanda R De La Torre; Benjamin Wilhite; David B Neale
Journal:  Genome Biol Evol       Date:  2019-10-01       Impact factor: 3.416

6.  The Welwitschia genome reveals a unique biology underpinning extreme longevity in deserts.

Authors:  Tao Wan; Zhiming Liu; Ilia J Leitch; Haiping Xin; Gillian Maggs-Kölling; Yanbing Gong; Zhen Li; Eugene Marais; Yiying Liao; Can Dai; Fan Liu; Qijia Wu; Chi Song; Yadong Zhou; Weichang Huang; Kai Jiang; Qi Wang; Yong Yang; Zhixiang Zhong; Ming Yang; Xue Yan; Guangwan Hu; Chen Hou; Yingjuan Su; Shixiu Feng; Ji Yang; Jijun Yan; Jinfang Chu; Fan Chen; Jinhua Ran; Xiaoquan Wang; Yves Van de Peer; Andrew R Leitch; Qingfeng Wang
Journal:  Nat Commun       Date:  2021-07-12       Impact factor: 14.919

7.  Updated Genome Assembly and Annotation for Metrosideros polymorpha, an Emerging Model Tree Species of Ecological Divergence.

Authors:  Ayako Izuno; Thomas Wicker; Masaomi Hatakeyama; Dario Copetti; Kentaro K Shimizu
Journal:  G3 (Bethesda)       Date:  2019-11-05       Impact factor: 3.154

8.  Functional and morphological evolution in gymnosperms: A portrait of implicated gene families.

Authors:  Amanda R De La Torre; Anthony Piot; Bobin Liu; Benjamin Wilhite; Matthew Weiss; Ilga Porth
Journal:  Evol Appl       Date:  2019-07-21       Impact factor: 5.183

Review 9.  From Genome Sequencing to CRISPR-Based Genome Editing for Climate-Resilient Forest Trees.

Authors:  Hieu Xuan Cao; Giang Thi Ha Vu; Oliver Gailing
Journal:  Int J Mol Sci       Date:  2022-01-16       Impact factor: 5.923

10.  Haploid, diploid, and pooled exome capture recapitulate features of biology and paralogy in two non-model tree species.

Authors:  Brandon M Lind; Mengmeng Lu; Dragana Obreht Vidakovic; Pooja Singh; Tom R Booker; Sally N Aitken; Sam Yeaman
Journal:  Mol Ecol Resour       Date:  2021-08-14       Impact factor: 8.678

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