Evidence map›Paper›PMID 39406693›Full record

ArticleThe plant genome2024

Parental assigned chromosomes for cultivated cacao provides insights into genetic architecture underlying resistance to vascular streak dieback.

Peri A Tobias, Jacob Downs, Peter Epaina, Gurpreet Singh, Robert F Park, Richard J Edwards, Eirene Brugman, Andi Zulkifli, Junaid Muhammad, Agus Purwantara and 1 more

Erratum issuedAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in The plant genome, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. 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

5 · Who and what money

Authors and funding

11 authors.

Peri A TobiasSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.ORCID https://orcid.org/0000-0002-5645-0161
Jacob DownsSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.
Peter EpainaSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.
Gurpreet SinghSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.
Robert F ParkSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.
Richard J EdwardsMinderoo OceanOmics Centre at UWA, Oceans Institute, The University of Western Australia, Perth, Western Australia, Australia.
Eirene BrugmanCocoa Research Center Faculty of Agriculture, Universitas Hasanuddin, Makassar, Indonesia.
Andi ZulkifliMegarezky University, Makassar, Indonesia.
Junaid MuhammadCocoa Research Center Faculty of Agriculture, Universitas Hasanuddin, Makassar, Indonesia.
Agus PurwantaraMars Cocoa Research Station, Pangkep, Indonesia.
David I GuestSchool of Life and Environmental Sciences, The University of Sydney, Camperdown, New South Wales, Australia.

Funding

The Joint Cocoa Research Fund, European Cocoa Association
6 · The paper itself

Abstract

Diseases of Theobroma cacao L. (Malvaceae) disrupt cocoa bean supply and economically impact growers. Vascular streak dieback (VSD), caused by Ceratobasidium theobromae, is a new encounter disease of cacao currently contained to southeast Asia and Melanesia. Resistance to VSD has been tested with large progeny trials in Sulawesi, Indonesia, and in Papua New Guinea with the identification of informative quantitative trait loci (QTLs). Using a VSD susceptible progeny tree (clone 26), derived from a resistant and susceptible parental cross, we assembled the genome to chromosome-level and discriminated alleles inherited from either resistant or susceptible parents. The parentally phased genomes were annotated for all predicted genes and then specifically for resistance genes of the nucleotide-binding site leucine-rich repeat class (NLR). On investigation, we determined the presence of NLR clusters and other potential disease response gene candidates in proximity to informative QTLs. We identified structural variants within NLRs inherited from parentals. We present the first diploid, fully scaffolded, and parentally phased genome resource for T. cacao L. and provide insights into the genetics underlying resistance and susceptibility to VSD.

Indexed as

CacaoChromosomes, PlantDisease ResistancePlant DiseasesQuantitative Trait LociBasidiomycotaChromosome MappingGenome, Plant

Identifiers

PMID39406693
PMCPMC11628906

What Socratic 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 Socratic graph.