Ipomoea batatas Tanzania Consensus Genome Assembly and Annotation - Version 1

Zhangjun Fei (Boyce Thompson Institute/Cornell) has sequenced I. batatas Tanzania and created a consensus chromosome-scale genome assembly (version 1). The genome assembly has been annotated by Robin Buell and her group at the University of Georgia. The genome assembly and annotation is publicly available. Please see our preprint Phased chromosome-level genome assembly provides insight into the origin of hexaploid sweetpotato for more information.

Release Date: August 21, 2024:

Genome Assembly:

• Tanzania_con_v1.asm.fa.gz - Genome assembly for Tanzania Consensus - v1
• Tanzania_con_v1.asm.hm.fa.gz - Masked genome assembly for Tanzania Consensus - v1
• Tanzania_con_v1.asm.sm.fa.gz - Soft masked genome assembly for Tanzania Consensus - v1

Genome Annotation:

• High Confidence Gene Model Set
• Tanzania_con_v1.hc_gene_models.cdna.fa.gz - Transcript sequences (cDNA) of the high confidence gene models
• Tanzania_con_v1.hc_gene_models.cds.fa.gz - Coding sequences (CDS) of the high confidence gene models
• Tanzania_con_v1.hc_gene_models.pep.fa.gz - Protein sequences of the high confidence gene models
• Tanzania_con_v1.hc_gene_models.gff3.gz - High confidence gene models annotation in GFF3 format


• Representative High Confidence Gene Model Set

High confidence representative gene models are a subset of the high confidence gene model set. Each representative gene model is the isoform with the longest CDS at each locus.

• Tanzania_con_v1.hc_gene_models.repr.cdna.fa.gz - Transcript sequences (cDNA) of the the representative high confidence gene models
• Tanzania_con_v1.hc_gene_models.repr.cds.fa.gz - Coding sequences (CDS) of the representative high confidence gene models
• Tanzania_con_v1.hc_gene_models.repr.pep.fa.gz - Protein sequences of the representative high confidence gene models
• Tanzania_con_v1.hc_gene_models.repr.gff3.gz - Representative high confidence gene models annotation in GFF3 format


• Working Gene Model Set

The set of working gene models contains all loci and isoforms from the annotation pipeline and may include artifacts such as partial gene models.

• Tanzania_con_v1.working_models.cdna.fa.gz - Transcript sequences (cDNA) of the working gene models
• Tanzania_con_v1.working_models.cds.fa.gz - Coding sequences (CDS) of the working gene models
• Tanzania_con_v1.working_models.pep.fa.gz - Protein sequences of the working gene models
• Tanzania_con_v1.working_models.gff3.gz - Working gene models annotation in GFF3 format
• Tanzania_con_v1.functional_annotation.txt.gz - Functional annotation for the working gene models


• Representative Working Gene Model Set

The representative working gene models are a subset of the working gene model set. Each representative gene model is the isoform with the longest CDS at each locus.

• Tanzania_con_v1.working_models.repr.cdna.fa.gz - Transcript sequences (cDNA) of the representative working gene models
• Tanzania_con_v1.working_models.repr.cds.fa.gz - Coding sequences (CDS) of the representative working gene models
• Tanzania_con_v1.working_models.repr.pep.fa.gz - Protein sequences of the representative working gene models

Contact:

Dr. C. Robin Buell, University of Georgia - Robin.Buell@uga.edu

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Funding has been provided by awards from the Bill & Melinda Gates Foundation. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the Bill & Melinda Gates Foundation.

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