Chromosome-Scale Assembly of the Complete Genome Sequence of Porcisia hertigi, Isolate C119, Strain LV43

Almutairi, Hatim; Urbaniak, Michael D.; Bates, Michelle; Al-Salem, Waleed S.; Dillon, Rod J.; Bates, Paul A.; Gatherer, Derek

doi:10.1128/mra.00651-21

Cited by 1 publication

(1 citation statement)

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“…Of these 83 genomes, 31 are from Leishmania and 43 are from Trypanosoma genera. TriTrypDB also has genomes of other parasitic kinetoplastids including, Angomonas deanei [ 11 ] , Blechomonas ayalai , Crithidia fasciculata [ 12 ] , Endotrypanum monterogeii [ 12 ] , Leptomonas pyrrhocoris [ 13 ] , Leptomonas seymouri [ 14 ] , Paratrypanosoma confusum [ 15 ], and Porcisia hertigi [ 16 , 17 ] and free-living nonparasitic kinetoplastid Bodo saltans . Gene annotations are available for 66 of these sequences, while the remaining 17 are genome assemblies without annotations ( Table 1 ).…”

Section: Methodsmentioning

confidence: 99%

TriTrypDB: An integrated functional genomics resource for kinetoplastida

et al. 2023

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Parasitic diseases caused by kinetoplastid parasites are a burden to public health throughout tropical and subtropical regions of the world. TriTrypDB (https://tritrypdb.org) is a free online resource for data mining of genomic and functional data from these kinetoplastid parasites and is part of the VEuPathDB Bioinformatics Resource Center (https://veupathdb.org). As of release 59, TriTrypDB hosts 83 kinetoplastid genomes, nine of which, including Trypanosoma brucei brucei TREU927, Trypanosoma cruzi CL Brener and Leishmania major Friedlin, undergo manual curation by integrating information from scientific publications, high-throughput assays and user submitted comments. TriTrypDB also integrates transcriptomic, proteomic, epigenomic, population-level and isolate data, functional information from genome-wide RNAi knock-down and fluorescent tagging, and results from automated bioinformatics analysis pipelines. TriTrypDB offers a user-friendly web interface embedded with a genome browser, search strategy system and bioinformatics tools to support custom in silico experiments that leverage integrated data. A Galaxy workspace enables users to analyze their private data (e.g., RNA-sequencing, variant calling, etc.) and explore their results privately in the context of publicly available information in the database. The recent addition of an annotation platform based on Apollo enables users to provide both functional and structural changes that will appear as ‘community annotations’ immediately and, pending curatorial review, will be integrated into the official genome annotation.

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