Evidence map›Paper›PMID 42639691›Full record

ArticleThe plant genome2026

A yield-reducing introgression linked to sd1 in rice.

Flavia Furlan, Brijesh Angira, Maria Montiel, Jonathan Richards, Tommaso Cerioli, Christopher Hernandez, Roberto Fritsche-Neto, John Platten, Jomar Punzalan, Susan McCouch and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in The plant genome, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

13 authors.

Flavia FurlanH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.
Brijesh AngiraH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.ORCID https://orcid.org/0000-0002-7366-3169
Maria MontielH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.ORCID https://orcid.org/0000-0001-8615-6070
Jonathan RichardsDepartment of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, Louisiana, USA.
Tommaso CerioliH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.
Christopher HernandezDepartment of Agriculture, Nutrition, and Food Systems, University System of New Hampshire, Durham, New Hampshire, USA.
Roberto Fritsche-NetoH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.
John PlattenInternational Rice Research Institute, Los Baños, Philippines.ORCID https://orcid.org/0000-0001-6137-5955
Jomar PunzalanH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.
Susan McCouchCornell Institute for Digital Agriculture, Cornell University, Ithaca, New York, USA.
Kelly RobbinsSection of Plant Breeding and Genetics, School of Integrative Plant Sciences, Cornell University, Ithaca, New York, USA.ORCID https://orcid.org/0000-0001-9522-9585
Xueyan ShaRice Research & Extension Center, University of Arkansas Division of Agriculture, Stuttgart, Arkansas, USA.
Adam FamosoH. Rouse Caffey Rice Research Station, Louisiana State University Agricultural Center, Rayne, Louisiana, USA.ORCID https://orcid.org/0000-0002-6461-6504

Funding

Louisiana Rice Research BoardNational Institute of Food and Agriculture Hatch Project LAB#94757
6 · The paper itself

Abstract

The semi-dwarf (sd1) allele was central to the Green Revolution, but its widespread use in US tropical japonica rice (Oryza sativa L.) may have introduced unintended effects through linkage drag. This study examined the genomic region surrounding sd1 using genome-wide association and haplotype analyses in a multiparent population (MP6/8) evaluated across environments and in a biparental population (MP-D) for validation. Genomic and phenotypic evidence indicated that an indica-derived haplotype upstream of sd1 persists in US tropical japonica and global indica semi-dwarf germplasm and is associated with reduced grain yield. Genome-wide association analysis confirmed sd1 as the primary determinant of reduced plant height and identified a quantitative trait locus at 36.69 Mb upstream of sd1 that was consistently associated with reduced grain yield (0.6-0.9 t ha

Indexed as

Genetic IntrogressionOryzaAllelesGenome-Wide Association StudyHaplotypesPhenotypeQuantitative Trait Loci

Identifiers

PMID42639691
PMCPMC13504454

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.