Literature DB >> 25854181

Beyond the thale: comparative genomics and genetics of Arabidopsis relatives.

Daniel Koenig1, Detlef Weigel1.   

Abstract

For decades a small number of model species have rightly occupied a privileged position in laboratory experiments, but it is becoming increasingly clear that our knowledge of biology is greatly improved when informed by a broader diversity of species and evolutionary context. Arabidopsis thaliana has been the primary model organism for plants, benefiting from a high-quality reference genome sequence and resources for reverse genetics. However, recent studies have made a group of species also in the Brassicaceae family and closely related to A. thaliana a focal point for comparative molecular, genomic, phenotypic and evolutionary studies. In this Review, we emphasize how such studies complement continued study of the model plant itself, provide an evolutionary perspective and summarize our current understanding of genetic and phenotypic diversity in plants.

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Year:  2015        PMID: 25854181     DOI: 10.1038/nrg3883

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  135 in total

1.  Homoeologous shuffling and chromosome compensation maintain genome balance in resynthesized allopolyploid Brassica napus.

Authors:  Zhiyong Xiong; Robert T Gaeta; J Chris Pires
Journal:  Proc Natl Acad Sci U S A       Date:  2011-04-21       Impact factor: 11.205

Review 2.  The advantages and disadvantages of being polyploid.

Authors:  Luca Comai
Journal:  Nat Rev Genet       Date:  2005-11       Impact factor: 53.242

3.  The genome of the extremophile crucifer Thellungiella parvula.

Authors:  Maheshi Dassanayake; Dong-Ha Oh; Jeffrey S Haas; Alvaro Hernandez; Hyewon Hong; Shahjahan Ali; Dae-Jin Yun; Ray A Bressan; Jian-Kang Zhu; Hans J Bohnert; John M Cheeseman
Journal:  Nat Genet       Date:  2011-08-07       Impact factor: 38.330

4.  Genomewide nonadditive gene regulation in Arabidopsis allotetraploids.

Authors:  Jianlin Wang; Lu Tian; Hyeon-Se Lee; Ning E Wei; Hongmei Jiang; Brian Watson; Andreas Madlung; Thomas C Osborn; R W Doerge; Luca Comai; Z Jeffrey Chen
Journal:  Genetics       Date:  2005-09-19       Impact factor: 4.562

5.  Multiple losses of self-incompatibility in North-American Arabidopsis lyrata?: phylogeographic context and population genetic consequences.

Authors:  P N Hoebe; M Stift; A Tedder; B K Mable
Journal:  Mol Ecol       Date:  2009-10-26       Impact factor: 6.185

6.  Diploid apomicts of the Boechera holboellii complex display large-scale chromosome substitutions and aberrant chromosomes.

Authors:  Laksana Kantama; Timothy F Sharbel; M Eric Schranz; Thomas Mitchell-Olds; Sacco de Vries; Hans de Jong
Journal:  Proc Natl Acad Sci U S A       Date:  2007-08-17       Impact factor: 11.205

7.  An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions.

Authors:  Annabelle Haudry; Adrian E Platts; Emilio Vello; Douglas R Hoen; Mickael Leclercq; Robert J Williamson; Ewa Forczek; Zoé Joly-Lopez; Joshua G Steffen; Khaled M Hazzouri; Ken Dewar; John R Stinchcombe; Daniel J Schoen; Xiaowu Wang; Jeremy Schmutz; Christopher D Town; Patrick P Edger; J Chris Pires; Karen S Schumaker; David E Jarvis; Terezie Mandáková; Martin A Lysak; Erik van den Bergh; M Eric Schranz; Paul M Harrison; Alan M Moses; Thomas E Bureau; Stephen I Wright; Mathieu Blanchette
Journal:  Nat Genet       Date:  2013-06-30       Impact factor: 38.330

8.  Variation in HMA4 gene copy number and expression among Noccaea caerulescens populations presenting different levels of Cd tolerance and accumulation.

Authors:  Adrian R Craciun; Claire-Lise Meyer; Jiugeng Chen; Nancy Roosens; Ruth De Groodt; Pierre Hilson; Nathalie Verbruggen
Journal:  J Exp Bot       Date:  2012-05-10       Impact factor: 6.992

9.  Evolution of DNA methylation patterns in the Brassicaceae is driven by differences in genome organization.

Authors:  Danelle K Seymour; Daniel Koenig; Jörg Hagmann; Claude Becker; Detlef Weigel
Journal:  PLoS Genet       Date:  2014-11-13       Impact factor: 5.917

10.  Genetic adaptation associated with genome-doubling in autotetraploid Arabidopsis arenosa.

Authors:  Jesse D Hollister; Brian J Arnold; Elisabeth Svedin; Katherine S Xue; Brian P Dilkes; Kirsten Bomblies
Journal:  PLoS Genet       Date:  2012-12-20       Impact factor: 5.917

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  26 in total

1.  Leaves may function as temperature sensors in the heterophylly of Rorippa aquatica (Brassicaceae).

Authors:  Hokuto Nakayama; Seisuke Kimura
Journal:  Plant Signal Behav       Date:  2015

2.  A spatiotemporally regulated transcriptional complex underlies heteroblastic development of leaf hairs in Arabidopsis thaliana.

Authors:  Long Wang; Chuan-Miao Zhou; Yan-Xia Mai; Ling-Zi Li; Jian Gao; Guang-Dong Shang; Heng Lian; Lin Han; Tian-Qi Zhang; Hong-Bo Tang; Hang Ren; Fu-Xiang Wang; Lian-Yu Wu; Xiao-Li Liu; Chang-Sheng Wang; Er-Wang Chen; Xue-Ning Zhang; Chang Liu; Jia-Wei Wang
Journal:  EMBO J       Date:  2019-03-06       Impact factor: 11.598

3.  An incoherent feed-forward loop mediates robustness and tunability in a plant immune network.

Authors:  Akira Mine; Tatsuya Nobori; Maria C Salazar-Rondon; Thomas M Winkelmüller; Shajahan Anver; Dieter Becker; Kenichi Tsuda
Journal:  EMBO Rep       Date:  2017-01-09       Impact factor: 8.807

Review 4.  Transgenerational stress-adaption: an opportunity for ecological epigenetics.

Authors:  Arne Weinhold
Journal:  Plant Cell Rep       Date:  2017-10-14       Impact factor: 4.570

Review 5.  Arabis alpina: A perennial model plant for ecological genomics and life-history evolution.

Authors:  Stefan Wötzel; Marco Andrello; Maria C Albani; Marcus A Koch; George Coupland; Felix Gugerli
Journal:  Mol Ecol Resour       Date:  2021-09-07       Impact factor: 8.678

6.  Adaptive responses of amino acid metabolism to the combination of desiccation and low nitrogen availability in Sporobolus stapfianus.

Authors:  Abou Yobi; Albert Batushansky; Melvin J Oliver; Ruthie Angelovici
Journal:  Planta       Date:  2019-02-06       Impact factor: 4.116

7.  Standing genetic variation in a tissue-specific enhancer underlies selfing-syndrome evolution in Capsella.

Authors:  Adrien Sicard; Christian Kappel; Young Wha Lee; Natalia Joanna Woźniak; Cindy Marona; John R Stinchcombe; Stephen I Wright; Michael Lenhard
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-14       Impact factor: 11.205

8.  The Arabidopsis effector-triggered immunity landscape is conserved in oilseed crops.

Authors:  Darrell Desveaux; David S Guttman; Clare Breit-McNally
Journal:  Sci Rep       Date:  2022-04-20       Impact factor: 4.379

9.  Transcriptome sequencing of Crucihimalaya himalaica (Brassicaceae) reveals how Arabidopsis close relative adapt to the Qinghai-Tibet Plateau.

Authors:  Qin Qiao; Qia Wang; Xi Han; Yanlong Guan; Hang Sun; Yang Zhong; Jinling Huang; Ticao Zhang
Journal:  Sci Rep       Date:  2016-02-24       Impact factor: 4.379

Review 10.  Evolution of TERT-interacting lncRNAs: expanding the regulatory landscape of telomerase.

Authors:  Andrew D L Nelson; Dorothy E Shippen
Journal:  Front Genet       Date:  2015-09-10       Impact factor: 4.599

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