ArticlePloS one2011
Comparative SNP and haplotype analysis reveals a higher genetic diversity and rapider LD decay in tropical than temperate germplasm in maize.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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.
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.
Who cites it
64 citing papers in PubMed, 104 citations in OpenAlex.
- Multienvironment multilocus association mapping reveals genomic regions for drought-related traits in tropical maize.G3 (Bethesda, Md.) · 2026Article
- Genetic diversity and population structure of temperate maize (Zea mays L.) inbred lines from a public breeding program in Argentina.BMC plant biology · 2026Article
- Identification of Genes Associated with the Pan-Vibrios Resistance (PVR) Trait of Pacific White Shrimp (Biology · 2026Article
- Unlocking tropical adaptation: novel flowering time genes implicate JA and ROS signaling in maize.BMC plant biology · 2026Article
- Integrated genomic analysis of a diverse maize population reveals novel genes and superior predictive models for ear diameter.BMC genomics · 2025Article
- Unraveling the genetic basis of maize ear diameter in a multi-parent RIL population derived from tropical and temperate germplasms.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Genetic dissection of hundred-kernel weight through combined genome-wide association study and linkage analysis in tropical maize.BMC genomics · 2025Article
- Association mapping of haploid male fertility in sweet corn.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Genetic diversity and dietary adaptations of the Central Plains Han Chinese population in East Asia.Communications biology · 2025Article
- Genome-wide association mapping and genomic prediction analyses reveal the genetic architecture of grain yield and agronomic traits under drought and optimum conditions in maize.BMC plant biology · 2025Article
- Novel candidate genes and genetic basis analysis of kernel starch content in tropical maize.BMC plant biology · 2025Article
- Genetic diversity and population structure analyses of tropical maize inbred lines using Single Nucleotide Polymorphism markers.PloS one · 2025Article
- QTL mapping and genome-wide association analysis reveal genetic loci and candidate gene for resistance to gray leaf spot in tropical and subtropical maize germplasm.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Molecular genetic diversity and linkage disequilibrium structure of the Egyptian faba bean using Single Primer Enrichment Technology (SPET).BMC genomics · 2024Article
- Combining genome-wide association study and transcriptome analysis to identify molecular markers and genetic basis of population-asynchronous ovarian development inZoological research · 2024Article
- Genetic Diversity within a Collection of Italian Maize Inbred Lines: A Resource for Maize Genomics and Breeding.Plants (Basel, Switzerland) · 2024Article
- Genetic variation among elite inbred lines suggests potential to breed for BNI-capacity in maize.Scientific reports · 2023Article
- Association Mapping and Expression Analysis of the Genes Involved in the Wood Formation of Poplar.International journal of molecular sciences · 2023Article
- Multi-model genome-wide association studies for appearance quality in rice.Frontiers in plant science · 2023Article
- Development of Novel Markers for Yield in Hevea brasiliensis Muell. Arg. Based on Candidate Genes from Biosynthetic Pathways Associated with Latex Production.Biochemical genetics · 2022Article
4 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding of genetic diversity and linkage disequilibrium (LD) decay in diverse maize germplasm is fundamentally important for maize improvement. A total of 287 tropical and 160 temperate inbred lines were genotyped with 1943 single nucleotide polymorphism (SNP) markers of high quality and compared for genetic diversity and LD decay using the SNPs and their haplotypes developed from genic and intergenic regions. Intronic SNPs revealed a substantial higher variation than exonic SNPs. The big window size haplotypes (3-SNP slide-window covering 2160 kb on average) revealed much higher genetic diversity than the 10 kb-window and gene-window haplotypes. The polymorphic information content values revealed by the haplotypes (0.436-0.566) were generally much higher than individual SNPs (0.247-0.259). Cluster analysis classified the 447 maize lines into two major groups, corresponding to temperate and tropical types. The level of genetic diversity and subpopulation structure were associated with the germplasm origin and post-domestication selection. Compared to temperate lines, the tropical lines had a much higher level of genetic diversity with no significant subpopulation structure identified. Significant variation in LD decay distance (2-100 kb) was found across the genome, chromosomal regions and germplasm groups. The average of LD decay distance (10-100 kb) in the temperate germplasm was two to ten times larger than that in the tropical germplasm (5-10 kb). In conclusion, tropical maize not only host high genetic diversity that can be exploited for future plant breeding, but also show rapid LD decay that provides more opportunity for selection.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.