On the public citation graph

Subtelomeric regions and a repeat-rich chromosome harbor multicopy effector gene clusters with variable conservation in multiple plant pathogenic Colletotrichum species

https://doi.org/10.1101/2020.04.28.061093

0 signed · 65 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.

Claim with ORCID

Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.

See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/0471250953.bi1003s00openalex-snapshot

Using MUMmer to Identify Similar Regions in Large Sequence Sets

inferredcites →https://doi.org/10.1007/s10327-016-0689-0openalex-snapshot

Markers to differentiate species of anthracnose fungi identify Colletotrichum fructicola as the predominant virulent species in strawberry plants in Chiba Prefecture of Japan

inferredcites →https://doi.org/10.1016/j.fgb.2015.07.013openalex-snapshot

Cytological analyses of the karyotypes and chromosomes of three Colletotrichum species, C. orbiculare, C. graminicola and C. higginsianum

inferredcites →https://doi.org/10.1016/j.gde.2015.09.001openalex-snapshot

The two-speed genomes of filamentous pathogens: waltz with plants

inferredcites →https://doi.org/10.1038/nature05248openalex-snapshot

Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis

inferredcites →https://doi.org/10.1038/nature05286openalex-snapshot

The plant immune system

inferredcites →https://doi.org/10.1038/ncomms1189openalex-snapshot

Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations

inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot

Fast gapped-read alignment with Bowtie 2

inferredcites →https://doi.org/10.1038/nrg2812openalex-snapshot

Plant immunity: towards an integrated view of plant–pathogen interactions

inferredcites →https://doi.org/10.1038/s41576-018-0007-0openalex-snapshot

Structural variation in the 3D genome

inferredcites →https://doi.org/10.1038/s41592-018-0001-7openalex-snapshot

Accurate detection of complex structural variations using single-molecule sequencing

inferredcites →https://doi.org/10.1038/s41598-020-58356-1openalex-snapshot

Standardized phylogenetic and molecular evolutionary analysis applied to species across the microbial tree of life

inferredcites →https://doi.org/10.1038/s41598-020-59121-0openalex-snapshot

SLIM: Simultaneous Logic-in-Memory Computing Exploiting Bilayer Analog OxRAM Devices

inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot

The Sequence Alignment/Map format and SAMtools

inferredcites →https://doi.org/10.1093/bioinformatics/btp616openalex-snapshot

edgeR : a Bioconductor package for differential expression analysis of digital gene expression data

inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot

BEDTools: a flexible suite of utilities for comparing genomic features

inferredcites →https://doi.org/10.1093/bioinformatics/btr039openalex-snapshot

Easyfig: a genome comparison visualizer

inferredcites →https://doi.org/10.1093/bioinformatics/bts635openalex-snapshot

STAR: ultrafast universal RNA-seq aligner

inferredcites →https://doi.org/10.1093/bioinformatics/btt086openalex-snapshot

QUAST: quality assessment tool for genome assemblies

inferredcites →https://doi.org/10.1093/bioinformatics/btv351openalex-snapshot

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

inferredcites →https://doi.org/10.1093/bioinformatics/btv713openalex-snapshot

CASSIS and SMIPS: promoter-based prediction of secondary metabolite gene clusters in eukaryotic genomes

inferredcites →https://doi.org/10.1093/bioinformatics/btx431openalex-snapshot

DeepLoc: prediction of protein subcellular localization using deep learning

inferredcites →https://doi.org/10.1093/bioinformatics/btz305openalex-snapshot

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

inferredcites →https://doi.org/10.1093/gbe/evw089openalex-snapshot

Genus-Wide Comparative Genome Analyses of Colletotrichum Species Reveal Specific Gene Family Losses and Gains during Adaptation to Specific Infection Lifestyles

inferredcites →https://doi.org/10.1093/gbe/evz087openalex-snapshot

Genomic Plasticity Mediated by Transposable Elements in the Plant Pathogenic Fungus Colletotrichum higginsianum

inferredcites →https://doi.org/10.1093/genetics/150.4.1459openalex-snapshot

Transfer of a Supernumerary Chromosome Between Vegetatively Incompatible Biotypes of the Fungus Colletotrichum gloeosporioides

inferredcites →https://doi.org/10.1093/gigascience/gix120openalex-snapshot

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

inferredcites →https://doi.org/10.1093/gigascience/giy018openalex-snapshot

Genome Annotation Generator: a simple tool for generating and correcting WGS annotation tables for NCBI submission

inferredcites →https://doi.org/10.1093/molbev/msz189openalex-snapshot

ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models

inferredcites →https://doi.org/10.1093/nar/gkr987openalex-snapshot

MEROPS: the database of proteolytic enzymes, their substrates and inhibitors

inferredcites →https://doi.org/10.1093/nar/gks479openalex-snapshot

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

inferredcites →https://doi.org/10.1093/nar/gkt449openalex-snapshot

antiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers

inferredcites →https://doi.org/10.1093/nar/gkz114openalex-snapshot

The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads

inferredcites →https://doi.org/10.1101/gr.152660.112openalex-snapshot

Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen

inferredcites →https://doi.org/10.1104/pp.17.01310openalex-snapshot

LTR_retriever: A Highly Accurate and Sensitive Program for Identification of Long Terminal Repeat Retrotransposons

inferredcites →https://doi.org/10.1105/tpc.12.11.2019openalex-snapshot

A Telomeric Avirulence Gene Determines Efficacy for the Rice Blast Resistance Gene Pi-ta

inferredcites →https://doi.org/10.1111/1462-2920.14037openalex-snapshot

Evolution within the fungal genus Verticillium is characterized by chromosomal rearrangement and gene loss

inferredcites →https://doi.org/10.1111/mec.15168openalex-snapshot

Dynamic virulence‐related regions of the plant pathogenic fungus Verticillium dahliae display enhanced sequence conservation

inferredcites →https://doi.org/10.1111/mpp.12682openalex-snapshot

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

inferredcites →https://doi.org/10.1111/nph.12085openalex-snapshot

Comparative genomic and transcriptomic analyses reveal the hemibiotrophic stage shift of Colletotrichum fungi

inferredcites →https://doi.org/10.1111/nph.13794openalex-snapshot

E ffector P: predicting fungal effector proteins from secretomes using machine learning

inferredcites →https://doi.org/10.1111/nph.15369openalex-snapshot

Genetic map‐guided genome assembly reveals a virulence‐governing minichromosome in the lentil anthracnose pathogen Colletotrichum lentis

inferredcites →https://doi.org/10.1128/ec.00192-12openalex-snapshot

Overexpression of a Novel Biotrophy-Specific Colletotrichum truncatum Effector, CtNUDIX, in Hemibiotrophic Fungal Phytopathogens Causes Incompatibility with Their Host Plants

inferredcites →https://doi.org/10.1146/annurev.phyto.44.070505.143436openalex-snapshot

A Catalogue of the Effector Secretome of Plant Pathogenic Oomycetes

inferredcites →https://doi.org/10.1186/1759-8753-5-13openalex-snapshot

“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files

inferredcites →https://doi.org/10.1186/s12864-016-2917-6openalex-snapshot

Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

inferredcites →https://doi.org/10.1186/s12864-016-3480-xopenalex-snapshot

Comparative analysis of the mitochondrial genomes of Colletotrichum gloeosporioides sensu lato: insights into the evolution of a fungal species complex interacting with diverse plants

inferredcites →https://doi.org/10.1186/s12864-017-4083-xopenalex-snapshot

Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters

inferredcites →https://doi.org/10.1186/s13059-019-1832-yopenalex-snapshot

OrthoFinder: phylogenetic orthology inference for comparative genomics

inferredcites →https://doi.org/10.1186/s13100-015-0041-9openalex-snapshot

Repbase Update, a database of repetitive elements in eukaryotic genomes

inferredcites →https://doi.org/10.1371/journal.pgen.1000814openalex-snapshot

A Comprehensive Map of Insulator Elements for the Drosophila Genome

inferredcites →https://doi.org/10.1371/journal.pgen.1008272openalex-snapshot

Effector gene reshuffling involves dispensable mini-chromosomes in the wheat blast fungus

inferredcites →https://doi.org/10.1371/journal.pgen.1008370openalex-snapshot

Environmental and epigenetic regulation of Rider retrotransposons in tomato

inferredcites →https://doi.org/10.1371/journal.ppat.1002147openalex-snapshot

Multiple Translocation of the AVR-Pita Effector Gene among Chromosomes of the Rice Blast Fungus Magnaporthe oryzae and Related Species

inferredcites →https://doi.org/10.1534/genetics.118.301050openalex-snapshot

Extraordinary Genome Instability and Widespread Chromosome Rearrangements During Vegetative Growth

inferredcites →https://doi.org/10.3114/sim0011openalex-snapshot

The Colletotrichum gloeosporioides species complex

inferredcites →https://doi.org/10.3114/sim0014openalex-snapshot

Colletotrichum – current status and future directions

inferredcites →https://doi.org/10.3389/fmicb.2018.01005openalex-snapshot

A Dispensable Chromosome Is Required for Virulence in the Hemibiotrophic Plant Pathogen Colletotrichum higginsianum

inferredcites →https://doi.org/10.5539/jas.v4n7p51openalex-snapshot

Comparison and Improvement of Different Methods of RNA Isolation from Strawberry (Fragria * ananassa)

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1093/gbe/evab135openalex-snapshot

Transposable Elements Contribute to Genome Dynamics and Gene Expression Variation in the Fungal Plant Pathogen Verticillium dahliae

inferred← citeshttps://doi.org/10.1101/2023.11.07.566145openalex-snapshot

An acidophilic fungus is integral to prey digestion in a carnivorous plant

inferred← citeshttps://doi.org/10.1128/mbio.00645-23openalex-snapshot

A chromosome-scale genome assembly of the grape powdery mildew pathogen Erysiphe necator reveals its genomic architecture and previously unknown features of its biology

inferred← citeshttps://doi.org/10.1186/s12864-026-12599-wopenalex-snapshot

Telomere-to-telomere genome assembly of Metarhizium acridum provides insights into Metarhizium genome evolution

inferred← citeshttps://doi.org/10.3389/fmicb.2021.682155openalex-snapshot

The Conserved Colletotrichum spp. Effector Candidate CEC3 Induces Nuclear Expansion and Cell Death in Plants

inferred← citeshttps://doi.org/10.3390/plants9050641openalex-snapshot

The Many Questions about Mini Chromosomes in Colletotrichum spp.

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.