ArticleBMC biology2019
Haplotype-resolved genomes of geminivirus-resistant and geminivirus-susceptible African cassava cultivars.
Article in BMC biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed, 76 citations in OpenAlex.
- Haplotype applications in genomic selection.Genome biology · 2026Review
- A BAC-guided haplotype assembly pipeline increases the resolution of the virus resistance locus CMD2 in cassava.Genome biology · 2025Article
- The haplotype-resolved assembly of COL40 a cassava (Manihot esculenta) line with broad-spectrum resistance against viruses causing Cassava brown streak disease unveils a region of highly repeated elements on chromosome 12.G3 (Bethesda, Md.) · 2025Article
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- Advancements and strategies of genetic improvement in cassava (Horticulture research · 2025Article
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- Review
- Chromosome-level genome assembly and annotation of Flueggea virosa (Phyllanthaceae).Scientific data · 2024Article
- Article
- Haplotype-resolved genome of heterozygous African cassava cultivar TMEB117 (Manihot esculenta).Scientific data · 2023Article
- Telomere-to-telomere assembly of cassava genome reveals the evolution of cassava and divergence of allelic expression.Horticulture research · 2023Article
- High-quality chromosome-level de novo assembly of the Trifolium repens.BMC genomics · 2023Article
- Metabolic profiles of Sri Lankan cassava mosaic virus-infected and healthy cassava (Manihot esculenta Crantz) cultivars with tolerance and susceptibility phenotypes.BMC plant biology · 2023Article
- The rising threat of geminiviruses: molecular insights into the disease mechanism and mitigation strategies.Molecular biology reports · 2023Review
- Climate change challenges, plant science solutions.The Plant cell · 2023Article
- Mutations in DNA polymerase δ subunit 1 co-segregate with CMD2-type resistance to Cassava Mosaic Geminiviruses.Nature communications · 2022Article
- Advances in Genetic Analysis and Breeding of Cassava (Plants (Basel, Switzerland) · 2022Review
- Maximizing value of genetic sequence data requires an enabling environment and urgency.Global food security · 2022Article
- Current status and impending progress for cassava structural genomics.Plant molecular biology · 2022Review
- Cassava mosaic disease and its management in Southeast Asia.Plant molecular biology · 2022Review
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Authors and funding
13 authors at 4 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCassava is an important food crop in tropical and sub-tropical regions worldwide. In Africa, cassava production is widely affected by cassava mosaic disease (CMD), which is caused by the African cassava mosaic geminivirus that is transmitted by whiteflies. Cassava breeders often use a single locus, CMD2, for introducing CMD resistance into susceptible cultivars. The CMD2 locus has been genetically mapped to a 10-Mbp region, but its organization and genes as well as their functions are unknown.
resultsWe report haplotype-resolved de novo assemblies and annotations of the genomes for the African cassava cultivar TME (tropical Manihot esculenta), which is the origin of CMD2, and the CMD-susceptible cultivar 60444. The assemblies provide phased haplotype information for over 80% of the genomes. Haplotype comparison identified novel features previously hidden in collapsed and fragmented cassava genomes, including thousands of allelic variants, inter-haplotype diversity in coding regions, and patterns of diversification through allele-specific expression. Reconstruction of the CMD2 locus revealed a highly complex region with nearly identical gene sets but limited microsynteny between the two cultivars.
conclusionsThe genome maps of the CMD2 locus in both 60444 and TME3, together with the newly annotated genes, will help the identification of the causal genetic basis of CMD2 resistance to geminiviruses. Our de novo cassava genome assemblies will also facilitate genetic mapping approaches to narrow the large CMD2 region to a few candidate genes for better informed strategies to develop robust geminivirus resistance in susceptible cassava cultivars.
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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.