Research graph
References from A pseudo-phased genome assembly for Hemileia vastatrix reveals an isolate-specific chromosomal haploid trisomy. Local targets link to admitted publications; unresolved targets remain external evidence.
ChromoMap: an R package for interactive visualization of multi-omics data and annotation of chromosomes
10.1186/s12859-021-04556-z · 2022 · External reference
Genome sequence of Hemileia vastatrix Berk. and Br. (race I), the causal agent of coffee leaf rust, isolate from Risaralda, Colombia
10.1128/mra.00444-23 · 2023 · External reference
Unresolved reference
1981 · External reference
Sensitive protein alignments at tree-of-life scale using DIAMOND
10.1038/s41592-021-01101-x · 2021 · External reference
Genetic diversity and structure of Hemileia vastatrix populations on Coffea spp
10.1111/ppa.12411 · 2016 · External reference
Chromosome-level de novo genome assembly of Telopea speciosissima (New South Wales waratah) using long-reads, linked-reads and Hi-C
10.1111/1755-0998.13574 · 2022 · External reference
Cytological studies on germinating teliospores of Hemileia vastatrix
10.1080/00087114.1965.10796194 · 1965 · External reference
Annotation of a hybrid partial genome of the coffee rust (Hemileia vastatrix) contributes to the gene repertoire catalog of the Pucciniales
10.3389/fpls.2014.00594 · 2014 · External reference
Plant DNA flow cytometry and estimation of nuclear genome size
10.1093/aob/mci005 · 2005 · External reference
Estimation of nuclear DNA content in plants using flow cytometry
10.1038/nprot.2007.310 · 2007 · External reference
As ferrugens do cafeeiro
1954 · External reference
Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data
10.1186/s13059-022-02658-2 · 2022 · External reference
De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds
10.1126/science.aal3327 · 2017 · External reference
Juicer provides a one-click system for analyzing loop-resolution Hi-C experiments
10.1016/j.cels.2016.07.002 · 2016 · External reference
10.1101/2022.04.22.489119
10.1101/2022.04.22.489119 · 2022 · External reference
Austropuccinia psidii uses tetrapolar mating and produces meiotic spores in older infections on Eucalyptus grandis
10.1016/j.fgb.2022.103692 · 2022 · External reference
Major proliferation of transposable elements shaped the genome of the soybean rust pathogen Phakopsora pachyrhizi
10.1038/s41467-023-37551-4 · 2023 · External reference
QUAST: quality assessment tool for genome assemblies
10.1093/bioinformatics/btt086 · 2013 · External reference
InterProScan 5: genome-scale protein function classification
10.1093/bioinformatics/btu031 · 2014 · External reference
Quantitative framework for coffee leaf rust (Hemileia vastatrix), production and futures
10.33687/ijae.007.01.2744 · 2019 · External reference
Tiara: deep learning-based classification system for eukaryotic sequences
10.1093/bioinformatics/btab672 · 2022 · External reference
First report of coffee leaf rust caused by Hemileia vastatrix on coffee (Coffea arabica) in Hawaii
10.1094/pdis-05-21-1072-pdn · 2021 · External reference
Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation
10.1101/gr.215087.116 · 2016 · External reference
On the hunt for the alternate host of Hemileia vastatrix
10.1002/ece3.5755 · 2019 · External reference
10.1101/2019.12.19.882506
10.1101/2019.12.19.882506 · 2019 · External reference
Unresolved reference
2024 · External reference
MetaEuk-sensitive, high-throughput gene discovery, and annotation for large-scale eukaryotic metagenomics
10.1186/s40168-020-00808-x · 2020 · External reference
The sequence alignment/map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
10.48550/arxiv.1303.3997
10.48550/arxiv.1303.3997 · 2013 · External reference
Minimap2: pairwise alignment for nucleotide sequences
10.1093/bioinformatics/bty191 · 2018 · External reference
Haplotype-phased and chromosome-level genome assembly of Puccinia polysora, a giga-scale fungal pathogen causing southern corn rust
10.1111/1755-0998.13739 · 2023 · External reference
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
10.1126/science.1181369 · 2009 · External reference
Host adaptation and genome evolution of the broad host range fungal rust pathogen, Austropuccinia psidii
10.1093/g3journal/jkaf255 · 2025 · External reference
Genome biology and evolution of mating-type loci in four cereal rust fungi
10.1371/journal.pgen.1011207 · 2024 · External reference
Shuffling effector genes through mini-chromosomes
10.1371/journal.pgen.1008345 · 2019 · External reference
BUSCO update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes
10.1093/molbev/msab199 · 2021 · External reference
Global rust belt: Hemileia vastatrix and the ecological integration of world coffee production since 1850
10.1017/s174002280600012x · 2006 · External reference
The big rust and the Red Queen: long-term perspectives on coffee rust research
10.1094/phyto-04-15-0085-rvw · 2015 · External reference
Note on the structure and habit of Hemileia vastatrix, the coffee-leaf disease of Ceylon and southern India
10.1111/j.1095-8339.1880.tb01240.x · 1880 · External reference
Predicting secretory proteins with SignalP
10.1007/978-1-4939-7015-5_6 · 2017 · External reference
Composition and diversity of LTR retrotransposons in the coffee leaf rust genome (Hemileia vastatrix)
10.3390/agronomy12071665 · 2022 · External reference
Unresolved reference
2023 · External reference
Effector gene reshuffling involves dispensable mini-chromosomes in the wheat blast fungus
10.1371/journal.pgen.1008272 · 2019 · External reference
Genome sequencing and transcript analysis of Hemileia vastatrix reveal expression dynamics of candidate effectors dependent on host compatibility
10.1371/journal.pone.0215598 · 2019 · External reference
Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies
10.1186/s13059-020-02134-9 · 2020 · External reference
Purge haplotigs: synteny reduction for third-gen diploid genome assemblies
10.1186/s12859-018-2485-7 · 2018 · External reference
Distinct life histories impact dikaryotic genome evolution in the rust fungus Puccinia striiformis causing stripe rust in wheat
10.1093/gbe/evaa071 · 2020 · External reference
A chromosome scale assembly of an Australian Puccinia striiformis f. sp. tritici isolate of the PstS1 lineage
10.1094/mpmi-09-21-0236-a · 2022 · External reference
Extraction of high molecular weight DNA from fungal rust spores for long read sequencing
10.1007/978-1-4939-7249-4_5 · 2017 · External reference
Population genomic footprints of host adaptation, introgression and recombination in coffee leaf rust
10.1111/mpp.12657 · 2018 · External reference
An overview of the mechanisms involved in coffee-Hemileia vastatrix interactions: plant and pathogen perspectives
10.3390/agronomy12020326 · 2022 · External reference
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
10.1093/bioinformatics/btv351 · 2015 · External reference
Unresolved reference
2019 · External reference
Unresolved reference
2019 · External reference
Nuclear exchange generates population diversity in the wheat leaf rust pathogen Puccinia triticina
10.1038/s41564-023-01494-9 · 2023 · External reference
Effectorp 3.0: prediction of apoplastic and cytoplasmic effectors in fungi and oomycetes
10.1094/mpmi-08-21-0201-r · 2022 · External reference
OrthoVenn3: an integrated platform for exploring and visualizing orthologous data across genomes
10.1093/nar/gkad313 · 2023 · External reference
How good is a PCR efficiency estimate: recommendations for precise and robust qPCR efficiency assessments
10.1016/j.bdq.2015.01.005 · 2015 · External reference
The coffee leaf rust pathogen Hemileia vastatrix: one and a half centuries around the tropics
10.1111/mpp.12512 · 2017 · External reference
Genome size analyses of Pucciniales reveal the largest fungal genomes
10.3389/fpls.2014.00422 · 2014 · External reference
Unresolved reference
2013 · External reference
OrthoDB and BUSCO update: annotation of orthologs with wider sampling of genomes
10.1093/nar/gkae987 · 2025 · External reference
Unresolved reference
2026 · External reference
Austropuccinia psidii, causing myrtle rust, has a gigabase-sized genome shaped by transposable elements
10.1093/g3journal/jkaa015 · 2021 · External reference
10.1101/2022.07.29.502101
10.1101/2022.07.29.502101 · 2022 · External reference
Transposable elements contribute to genome dynamics and gene expression variation in the fungal plant pathogen Verticillium dahliae
10.1093/gbe/evab135 · 2021 · External reference
10.1101/2024.12.10.627719
10.1101/2024.12.10.627719 · 2024 · External reference
A method for the absolute quantification of cDNA using real-time PCR
10.1016/s0022-1759(03)00223-0 · 2003 · External reference
