🧬 Haplotype-Resolved Chromosome-Scale Genome Assembly of the Thai Bighead Catfish (Clarias macrocephalus)
This repository documents the high-quality, haplotype-resolved, chromosome-scale genome assembly of the Thai Bighead Catfish (Clarias macrocephalus), an ecologically and economically vital freshwater species native to Southeast Asia.
- 🧪 Genome Size: ~880 Mb
- 🔗 Pseudo-chromosomes: 27
- 📏 N50: 35.4 Mb
- ✅ BUSCO Completeness: 95.5%
- 🎯 Base Accuracy (QV): ~50 (99.999%)
- 🧬 K-mer Completeness (Merqury): 96.6%
Sequencing Technologies:
- PacBio HiFi
- Oxford Nanopore (ONT)
- Illumina PE150
- Hi-C (Chromatin Capture)
| Haplotype | Accession | Download |
|---|---|---|
| 🐠 Haplotype 1 | JBLWMO000000000 | fClaMac_1_1.0.fa |
| 🐟 Haplotype 2 | JBLWMP000000000 | fClaMac_2_1.0.fa |
| 🧬 Collapsed Diploid (Flye) | – | CMAM_FLYE_assembly.fasta |
| Data Type | SRA Accession | Link |
|---|---|---|
| 🧲 Nanopore | SRR29723575 | Nanopore long reads |
| 🧬 HiFi (PacBio) | SRR29723576 | High-fidelity long reads |
| 🧬 Illumina PE150 | SRR29723578 | Short reads |
| 🔗 Hi-C PE150 | SRR29723577 | Hi-C chromatin capture |
- 📌 BioSample: SAMN42347118
- 🧬 TaxID: 35657 – Clarias macrocephalus
This assembly fills a critical gap in the Clarias genus and supports:
- Comparative and structural genomics
- Conservation efforts and selective breeding
- Adaptive trait studies (e.g., air-breathing)
- Pan-genome graph construction
- Hybrid genome modeling
It contributes directly to the United Nations SDG 2 – Zero Hunger through sustainable aquaculture genomics.
All sequencing data, genome assemblies, figures, and workflows are publicly accessible under:
📦 Zenodo DOI: 10.5281/zenodo.14826875
Please cite the Zenodo record when using the data or assemblies.
Maintained by Quentin L.S. Andres, PhD. Project under Kasetsart University, THAILAND, Animal Genomics and Bioresources Research Unit. AGB Research Unit