Literature DB >> 21481029

Source verification of mis-identified Arabidopsis thaliana accessions.

Alison E Anastasio1, Alexander Platt, Matthew Horton, Erich Grotewold, Randy Scholl, Justin O Borevitz, Magnus Nordborg, Joy Bergelson.   

Abstract

A major strength of Arabidopsis thaliana as a model lies in the availability of a large number of naturally occurring inbred lines. Recent studies of A. thaliana population structure, using thousands of accessions from stock center and natural collections, have revealed a robust pattern of isolation by distance at several spatial scales, such that genetically identical individuals are generally found close to each other. However, some individual accessions deviate from this pattern. While some of these may be the products of rare long-distance dispersal events, many deviations may be the result of mis-identification, in the sense that the data regarding location of origin data are incorrect. Here, we aim to identify such discrepancies. Of the 5965 accessions examined, we conclude that 286 deserve special attention as being potentially mis-identified. We describe these suspicious accessions and their possible origins, and advise caution with regard to their use in experiments in which accurate information on geographic origin is important. Finally, we discuss possibilities for maintaining the integrity of stock lines.
© 2011 The Authors. The Plant Journal © 2011 Blackwell Publishing Ltd.

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Year:  2011        PMID: 21481029     DOI: 10.1111/j.1365-313X.2011.04606.x

Source DB:  PubMed          Journal:  Plant J        ISSN: 0960-7412            Impact factor:   6.417


  31 in total

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Journal:  Plant Physiol       Date:  2011-12-06       Impact factor: 8.340

Review 2.  Data integration through proximity-based networks provides biological principles of organization across scales.

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4.  Variable Selection in Heterogeneous Datasets: A Truncated-rank Sparse Linear Mixed Model with Applications to Genome-wide Association Studies.

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5.  Lagging adaptation to warming climate in Arabidopsis thaliana.

Authors:  Amity M Wilczek; Martha D Cooper; Tonia M Korves; Johanna Schmitt
Journal:  Proc Natl Acad Sci U S A       Date:  2014-05-19       Impact factor: 11.205

6.  Ws-2 Introgression in a Proportion of Arabidopsis thaliana Col-0 Stock Seed Produces Specific Phenotypes and Highlights the Importance of Routine Genetic Verification.

Authors:  Mon-Ray Shao; Vikas Shedge; Hardik Kundariya; Fredric R Lehle; Sally A Mackenzie
Journal:  Plant Cell       Date:  2016-03-15       Impact factor: 11.277

7.  A Proposal Regarding Best Practices for Validating the Identity of Genetic Stocks and the Effects of Genetic Variants.

Authors:  Joy Bergelson; Edward S Buckler; Joseph R Ecker; Magnus Nordborg; Detlef Weigel
Journal:  Plant Cell       Date:  2016-03-08       Impact factor: 11.277

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9.  Analysis of Arabidopsis Accessions Hypersensitive to a Loss of Chloroplast Translation.

Authors:  Nicole Parker; Yixing Wang; David Meinke
Journal:  Plant Physiol       Date:  2016-10-05       Impact factor: 8.340

10.  Intron-mediated alternative splicing of Arabidopsis P5CS1 and its association with natural variation in proline and climate adaptation.

Authors:  Ravi Kesari; Jesse R Lasky; Joji Grace Villamor; David L Des Marais; Ying-Jiun C Chen; Tzu-Wen Liu; Wendar Lin; Thomas E Juenger; Paul E Verslues
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-21       Impact factor: 11.205

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