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Items: 1 to 20 of 83

1.

Genome-wide survey of pseudogenes in 80 fully re-sequenced Arabidopsis thaliana accessions.

Wang L, Si W, Yao Y, Tian D, Araki H, Yang S.

PLoS One. 2012;7(12):e51769. doi: 10.1371/journal.pone.0051769. Epub 2012 Dec 13.

2.

Evolutionary and expression signatures of pseudogenes in Arabidopsis and rice.

Zou C, Lehti-Shiu MD, Thibaud-Nissen F, Prakash T, Buell CR, Shiu SH.

Plant Physiol. 2009 Sep;151(1):3-15. doi: 10.1104/pp.109.140632. Epub 2009 Jul 29.

3.

Lowly expressed genes in Arabidopsis thaliana bear the signature of possible pseudogenization by promoter degradation.

Yang L, Takuno S, Waters ER, Gaut BS.

Mol Biol Evol. 2011 Mar;28(3):1193-203. doi: 10.1093/molbev/msq298. Epub 2010 Nov 8.

PMID:
21059790
4.

Characterization of 954 bovine full-CDS cDNA sequences.

Harhay GP, Sonstegard TS, Keele JW, Heaton MP, Clawson ML, Snelling WM, Wiedmann RT, Van Tassell CP, Smith TP.

BMC Genomics. 2005 Nov 23;6:166.

5.

Coding DNA repeated throughout intergenic regions of the Arabidopsis thaliana genome: evolutionary footprints of RNA silencing.

Feng J, Naiman DQ, Cooper B.

Mol Biosyst. 2009 Dec;5(12):1679-87. doi: 10.1039/b903031j. Epub 2009 Apr 30.

PMID:
19452047
6.

Darwinian selection on a selfing locus.

Shimizu KK, Cork JM, Caicedo AL, Mays CA, Moore RC, Olsen KM, Ruzsa S, Coop G, Bustamante CD, Awadalla P, Purugganan MD.

Science. 2004 Dec 17;306(5704):2081-4. Retraction in: Shimizu KK, Reininga JM, Caicedo AL, Mays CA, Moore RC, Olsen KM, Ruzsa S, Coop G, Bustamante CD, Purugganan MD. Science. 2008 Apr 11;320(5873):176.

7.

Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.

Arabidopsis Genome Initiative.

Nature. 2000 Dec 14;408(6814):796-815.

PMID:
11130711
8.

Genomic localization of AtRE1 and AtRE2, copia-type retrotransposons, in natural variants of Arabidopsis thaliana.

Yamada M, Yamagishi Y, Akaoka M, Ito H, Kato A.

Mol Genet Genomics. 2014 Oct;289(5):821-35. doi: 10.1007/s00438-014-0855-z. Epub 2014 Apr 27.

PMID:
24770782
9.

Genomic variations and distinct evolutionary rate of rare alleles in Arabidopsis thaliana.

Memon S, Jia X, Gu L, Zhang X.

BMC Evol Biol. 2016 Jan 27;16:25. doi: 10.1186/s12862-016-0590-7.

10.

A collection of sequenced and mapped Ds transposon insertion sites in Arabidopsis thaliana.

Raina S, Mahalingam R, Chen F, Fedoroff N.

Plant Mol Biol. 2002 Sep;50(1):93-110.

PMID:
12139012
11.

A small reservoir of disabled ORFs in the yeast genome and its implications for the dynamics of proteome evolution.

Harrison P, Kumar A, Lan N, Echols N, Snyder M, Gerstein M.

J Mol Biol. 2002 Feb 22;316(3):409-19.

PMID:
11866506
13.

Birth, death and subfunctionalization in the Arabidopsis genome.

Rutter MT, Cross KV, Van Woert PA.

Trends Plant Sci. 2012 Apr;17(4):204-12. doi: 10.1016/j.tplants.2012.01.006. Epub 2012 Feb 9. Review.

PMID:
22326563
14.
15.

Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding.

Ralph SG, Chun HJ, Cooper D, Kirkpatrick R, Kolosova N, Gunter L, Tuskan GA, Douglas CJ, Holt RA, Jones SJ, Marra MA, Bohlmann J.

BMC Genomics. 2008 Jan 29;9:57. doi: 10.1186/1471-2164-9-57.

16.

Independent origins of self-compatibility in Arabidopsis thaliana.

Shimizu KK, Shimizu-Inatsugi R, Tsuchimatsu T, Purugganan MD.

Mol Ecol. 2008 Jan;17(2):704-14. doi: 10.1111/j.1365-294X.2007.03605.x. Epub 2007 Dec 20.

PMID:
18179433
17.

Processed pseudogenes, processed genes, and spontaneous mutations in the Arabidopsis genome.

Benovoy D, Drouin G.

J Mol Evol. 2006 May;62(5):511-22. Epub 2006 Apr 11.

PMID:
16612535
18.

Isochore structures in the genome of the plant Arabidopsis thaliana.

Zhang R, Zhang CT.

J Mol Evol. 2004 Aug;59(2):227-38.

PMID:
15486696
19.

Similarity-based gene detection: using COGs to find evolutionarily-conserved ORFs.

Powell BC, Hutchison CA 3rd.

BMC Bioinformatics. 2006 Jan 19;7:31.

20.

Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22.

Harrison PM, Hegyi H, Balasubramanian S, Luscombe NM, Bertone P, Echols N, Johnson T, Gerstein M.

Genome Res. 2002 Feb;12(2):272-80.

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