Score: 2.00 |
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| Title: Characterization of pyruvate decarboxylase genes from rice .
| | Author: Hossain MA Huq E Grover A Dennis ES Peacock WJ Hodges TK .
| | Journal: Plant Mol . Biol . Citation: V : 31 ( 4 ) P : 761-70 Year: 1996 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub8806407 Accession (PMID): 8806407 | | Abstract: The pdc1 gene encoding pyruvate decarboxylase has been isolated and sequenced from an IR54 rice genomic library .
In contrast to a previously isolated intron-less rice genomic pdc , pRgpdc3 , this gene contains five intervening introns in the coding region and corresponds to a cDNA clone , pRcpdc1 , isolated from an IR54-cDNA library constructed from anaerobically-induced mRNAs .
Comparison of the deduced amino acid sequence of this gene with that of the rice pdc2 and pdc3 showed 88% and 89% similarity , and 78% and 79% identity , respectively .
Southern blots indicated that more than three genes constitute the pdc gene family in rice . pdc1 is highly inducible under anaerobic conditions .
Rice pdc2 is also inducible by anoxia but to a much lesser extent than pdc1 . | Matching Sentences:
[ Sen. 3, subscore: 1.00 ]: Comparison of the deduced amino acid sequence of this gene with that of the rice pdc2 and pdc3 showed 88% and 89% similarity , and 78% and 79% identity , respectively .
[ Sen. 5, subscore: 1.00 ]: Rice pdc2 is also inducible by anoxia but to a much lesser extent than pdc1 .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 1.00 |
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| Title: Evaluation of five ab initio gene prediction programs for the discovery of maize genes .
| | Author: Yao H Guo L Fu Y Borsuk LA Wen TJ Skibbe DS Cui X Scheffler BE Cao J Emrich SJ Ashlock DA Schnable PS .
| | Journal: Plant Mol . Biol . Citation: V : 57 ( 3 ) P : 445-60 Year: 2005 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub15830133 Accession (PMID): 15830133 | | Abstract: Five ab initio programs ( FGENESH , GeneMark . hmm , GENSCAN , GlimmerR and Grail ) were evaluated for their accuracy in predicting maize genes .
Two of these programs , GeneMark . hmm and GENSCAN had been trained for maize ; FGENESH had been trained for monocots ( including maize ) , and the others had been trained for rice or Arabidopsis .
Initial evaluations were conducted using eight maize genes ( gl8a , pdc2 , pdc3 , rf2c , rf2d , rf2e1 , rth1 , and rth3 ) of which the sequences were not released to the public prior to conducting this evaluation .
The significant advantage of this data set for this evaluation is that these genes could not have been included in the training sets of the prediction programs .
FGENESH yielded the most accurate and GeneMark . hmm the second most accurate predictions .
The five programs were used in conjunction with RT-PCR to identify and establish the structures of two new genes in the a1-sh2 interval of the maize genome .
FGENESH , GeneMark . hmm and GENSCAN were tested on a larger data set consisting of maize assembled genomic islands ( MAGIs ) that had been aligned to ESTs .
FGENESH , GeneMark . hmm and GENSCAN correctly predicted gene models in 773 , 625 , and 371 MAGIs , respectively , out of the 1353 MAGIs that comprise data set 2 .
| Matching Sentences:
[ Sen. 3, subscore: 1.00 ]: Initial evaluations were conducted using eight maize genes ( gl8a , pdc2 , pdc3 , rf2c , rf2d , rf2e1 , rth1 , and rth3 ) of which the sequences were not released to the public prior to conducting this evaluation .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
