Gossypium hirsutum (AD1) 'Preseco' genome ISU_v1

Overview
Analysis NameGossypium hirsutum (AD1) 'Preseco' genome ISU_v1
MethodPacBio; hifiasm v. 0.19
Source (v1)
Date performed2026-10-28

While domestication and improvement have led to significant gains in fiber quantity and quality, the narrow germplasm base of the modern cultivars has resulted in vulnerabilities, particularly to emerging pests. Wild populations provide a reservoir for genetic diversity that may be valuable in identifying and transferring resistance alleles to modern breeding lines. Here, we sequenced, assembled, and annotated four G. hirsutum genomes representing distinct, extant populations from its center of diversity in Yucatán, Mexico.  'Preseco' is one of the four.

Table 1. Summary of genome assemblies and annotations of the four assemblies.

Descriptor Chorlitos Consorcio Preseco  Pretropical
NCBI Reads GCA_061584075.1 GCA_0615841Preseco25.1 GCA_061584115.1 GCA_061584375.1
# PacBio HiFi Cells 2 1 1 2
Contigs* 583 378 647 625
Max Contig (MB) 128,283,507 127,429,699 129,687,223 127,605,846
Mean Contig (MB) 4,004,260.26 6,145,960.81 3,610,744.97 3,731,151.95
Contig N50 (MB) 107645744 107503331 86825695 89136967
Contig N90 (MB) 62091044 62047717 62047717 61581332
Total Contig Length 2334483729 2323173187 2336151994 2331969966
Assembly GC % 34.49% 34.46% 34.48% 34.48%
Scaffolds♱ 26 26 26 26
Max Scaffold (MB) 128283507 127429699 129687223 127605846
Mean Scaffold (MB) 88465180.42 88305400.31 88433614.42 88411158.35
Scaffold N50 107645744 107503331 107759002 107763604
Scaffold N90 62091044 62047717 62153346 61581332
Number scaffolded contigs 30 35 45 44
Total Scaffold Length (MB) 2300094691 2295940408 2299273975 2298690117
Number of genes 77610 77232 80273 77260
Repeat sequences (%) 71.36% 71.4% 71.25% 71.45%
Assembly

The chromosomes (pseudomolecules) for Gossypium hirsutum Preseco genome. These files belong to the Gossypium hirsutum (AD1) 'Preseco' genome ISU_v1.0

Chromosomes (FASTA format) G.hirsutum_ISU_AD1-Preseco.1.genome.fasta.gz
Genes

The predicted gene model, their alignments and proteins for Gossypium hirsutum var Preseco genome. These files belong to the Gossypium hirsutum (AD1) 'Preseco' genome ISU_v1.0

Predicted gene models with exons (GFF3 format) G.hirsutum_ISU_Preseco_v1.0.gff3.gz
Coding sequences, CDS (FASTA format) G.hirsutum_ISU_Preseco_v1.0.cds.fa.gz
Protein sequences (FASTA format) G.hirsutum_ISU_Preseco_v1.0.protein.fa.gz
Publication

Coming soon