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FunGAP: Fungal Genome Annotation Pipeline using evidence-based gene model evaluation.
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Protocols
… Find protocols provided by JGI and the JGI user community below for DNA preparation tools, high molecular-weight DNA … Tips for High Molecular Weight DNA extraction: … RNA Extraction Protocols: … iTag protocols: …
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User Support
… Notice Effective July 27, 2026, the JGI will move to a new login service, requiring the use of an ORCID account with two-factor authentication enabled to log in. Check our Help Site for additional information, including a Login Walkthrough …
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Geology and climate influence rhizobiome composition of the phenotypically diverse tropical tree Tabebuia heterophylla
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Horizontal gene transfer and gene dosage drives adaptation to wood colonization in a tree pathogen
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Understanding Wildfire Recovery, Starting in Soil
… A metagenomic look at the soil microbes present a year after … understanding of a recovering soil microbiome provides a window into how to model and track the forest recovery process.  … This work was supported through a USDA NIFA award (2021-67019-34608) to M.J.W. FTICR-MS analyses were performed under the Facilities Integrating Collaborations for …
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The complete mitochondrial genome of the conifer needle endophyte, Phialocephala scopiformis DAOMC 229536 confirms evolutionary division within the fungal Phialocephala fortinii s.l. – Acephala appalanata species complex
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CSP Functional Genomics
… The CSP Functional Genomics call is to enable users to perform state-of-the-art functional genomics research and to help them translate genomic information into biological function.  The emphasis is on projects … All proposals will be externally peer-reviewed for …
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Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant–pathogen interactions in a tree
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Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool
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Identification and Classification of Fungal GPCR Gene Families
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Webinar: PhycoCosm Tutorial
… Learn more about JGI’s  PhycoCosm data portal , an interactive … tools. Questions and Answers 1.  Q(uestion): Why would your Tree ever differ from NCBI Taxonomy? A(nswer): If you find … again how did you pick genomes to be on the genomes portal? For the taxa I work on, there are 7 genomes on NCBI but your …
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