Distinct evolutionary patterns of Oryza glaberrima deciphered by genome sequencing and comparative analysis (Q33821230)

29 July 2017

Distinct evolutionary patterns of Oryza glaberrima deciphered by genome sequencing and comparative analysis (English)

1 reference

29 July 2017

whole genome sequencing

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Oryza glaberrima

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Tsuyoshi Tanaka

3

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Takeshi Itoh

object named as

Takeshi Itoh

14

0 references

author name string

Hiroaki Sakai

1

1 reference

29 July 2017

Hiroshi Ikawa

2

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29 July 2017

Hisataka Numa

4

1 reference

29 July 2017

Hiroshi Minami

5

1 reference

29 July 2017

Masaki Fujisawa

6

1 reference

29 July 2017

Michie Shibata

7

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29 July 2017

Kanako Kurita

8

1 reference

29 July 2017

Ari Kikuta

9

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29 July 2017

Masao Hamada

10

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29 July 2017

Hiroyuki Kanamori

11

1 reference

29 July 2017

Nobukazu Namiki

12

1 reference

29 July 2017

Jianzhong Wu

13

1 reference

29 July 2017

Takashi Matsumoto

15

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29 July 2017

Takuji Sasaki

16

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29 July 2017

21 March 2011

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29 July 2017

10

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inferred from page(s)

published in

The Plant Journal

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29 July 2017

66

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29 July 2017

5

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29 July 2017

796-805

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Massive gene losses in Asian cultivated rice unveiled by comparative genome analysis

29 July 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Identification of a Rice stripe necrosis virus resistance locus and yield component QTLs using Oryza sativa x O. glaberrima introgression lines

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

A first-generation haplotype map of maize

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The Sorghum bicolor genome and the diversification of grasses

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

DNA changes tell us about rice domestication

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The Universal Protein Resource (UniProt) 2009

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Nonindependent domestication of the two rice subspecies, Oryza sativa ssp. indica and ssp. japonica, demonstrated by multilocus microsatellites

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Leveraging natural diversity: back through the bottleneck

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The Rice Annotation Project Database (RAP-DB): 2008 update

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

MIPSPlantsDB--plant database resource for integrative and comparative plant genome research

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The Oryza bacterial artificial chromosome library resource: construction and analysis of 12 deep-coverage large-insert BAC libraries that represent the 10 genome types of the genus Oryza

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The map-based sequence of the rice genome

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

InterProScan: protein domains identifier

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The Genomes of Oryza sativa: a history of duplications

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Genetic structure and diversity in Oryza sativa L

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The population structure of African cultivated rice oryza glaberrima (Steud.): evidence for elevated levels of linkage disequilibrium caused by admixture with O. sativa and ecological adaptation

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Rapid recent growth and divergence of rice nuclear genomes

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Enrichment of gene-coding sequences in maize by genome filtration

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

The TIGR Plant Repeat Databases: a collective resource for the identification of repetitive sequences in plants

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Human-mouse alignments with BLASTZ

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. japonica)

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): frequency, length variation, transposon associations, and genetic marker potential

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Selection against frameshift mutations limits microsatellite expansion in coding DNA

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

CAP3: A DNA sequence assembly program

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Positive Darwinian selection after gene duplication in primate ribonuclease genes

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

A high-density rice genetic linkage map with 2275 markers using a single F2 population.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Repetitive sequences: cause for variation in genome size and chromosome morphology in the genus Oryza

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Alien introgression in rice

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Origin, dispersal, cultivation and variation of rice

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Simple methods for testing the molecular evolutionary clock hypothesis.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

Extensive variation in evolutionary rate of rbcL gene sequences among seed plants

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568898

QTL mapping of grain quality traits from the interspecific cross Oryza sativa x O. glaberrima

4 July 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Radical amino acid change versus positive selection in the evolution of viral envelope proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

The nonsynonymous/synonymous substitution rate ratio versus the radical/conservative replacement rate ratio in the evolution of mammalian genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

QTL detection for rice grain quality traits using an interspecific backcross population derived from cultivated Asian (O. sativa L.) and African (O. glaberrima S.) rice

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.).

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

The amylose content in rice endosperm is related to the post-transcriptional regulation of the waxy gene.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Composition and structure of the centromeric region of rice chromosome 8.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Tri-nucleotide repeats and their association with genes in rice genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-313X.2011.04539.X

Identification of SNPs in the waxy gene among glutinous rice cultivars and their evolutionary significance during the domestication process of rice

21 January 2018

1 reference

12 December 2020

A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population

1 reference

12 December 2020

Rare variant alleles in the light of the neutral theory

1 reference

12 December 2020

Genomic distribution of simple sequence repeats in Brassica rapa

1 reference

12 December 2020

Rates of conservative and radical nonsynonymous nucleotide substitutions in mammalian nuclear genes

1 reference

12 December 2020

10.1111/J.1365-313X.2011.04539.X

Identifiers

DOI

1 reference

29 July 2017

1 reference

29 July 2017

1 reference