Evidence map›Paper›PMID 30353473›Full record

ArticleJournal of applied genetics2019

Genetic diversity, linkage disequilibrium, and population structure in a panel of Brazilian rice accessions.

Eduardo Venske, Cássia Fernanda Stafen, Victoria Freitas de Oliveira, Luciano Carlos da Maia, Ariano Martins de Magalhães Junior, Kenneth L McNally, Antonio Costa de Oliveira, Camila Pegoraro

Abstract read
PubMed Publisher
In one paragraph

Article in Journal of applied genetics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Eduardo VenskePlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil.
Cássia Fernanda StafenPlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil.
Victoria Freitas de OliveiraPlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil.
Luciano Carlos da MaiaPlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil.
Ariano Martins de Magalhães JuniorEmbrapa Temperate Climate Center, Rodovia BR 392, Km 78, PO Box 403, Pelotas, Rio Grande do Sul, 96010-971, Brazil.
Kenneth L McNallyInternational Rice Research Institute, Te-Tzu Chang Genetic Resources Center, 4031, Los Baños, Laguna, Philippines.
Antonio Costa de OliveiraPlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil. acostol@terra.com.br.ORCID http://orcid.org/0000-0001-8835-8071
Camila PegoraroPlant Genomics and Breeding Center, Crop Science Department, Eliseu Maciel College of Agronomy, Universidade Federal de Pelotas, Campus Universitário do Capão do Leão, PO Box 354, Pelotas, Rio Grande do Sul, 96010-900, Brazil.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Narrowing of genetic diversity and the quantitative nature of most agronomic traits is a challenge for rice breeding. Genome-wide association studies have a great potential to identify important variation in loci underlying quantitative and complex traits; however, before performing the analysis, it is important to assess parameters of the genotypic data and population under study, to improve the accuracy of the genotype-phenotype associations. The aim of this study was to access the genetic diversity, linkage disequilibrium, and population structure of a working panel of Brazilian and several introduced rice accessions, which are currently being phenotyped for a vast number of traits to undergo association mapping. Ninety-four accessions were genotyped with 7098 SNPs, and after filtering for higher call rates and removing rare variants, 93 accessions and 4973 high-quality SNPs remained for subsequent analyses and association studies. The overall mean of the polymorphic information content, heterozygosity, and gene diversity of the SNPs was comparable to other rice panels. The r

Indexed as

Genetics, PopulationLinkage DisequilibriumPolymorphism, Single NucleotideBrazilChromosome MappingGenetic Association StudiesOryzaPlant BreedingAssociation mappingGenomic toolsGenotypic parameters

Identifiers

PMID30353473

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.