Draft genome sequence data of
7 affiliations
- 1Programme on Environmental Toxicology, Chulabhorn Graduate Institute, Bangkok, 10210, Thailand; Center of Excellence on Environmental Health and Toxicology (EHT), OPS, MHESI, Bangkok, 10400, Thailand
- 2Programme on Environmental Toxicology, Chulabhorn Graduate Institute, Bangkok, 10210, Thailand
- 3Center for Research Innovation and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Nakhon Pathom, 73170, Thailand
- 4Pornchai Matangkasombut Center for Microbial Genomics, Department of Microbiology, Faculty of Science, Mahidol University, Bangkok, 10400, Thailand
- 5Unit of Water and Food Analysis, Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen, 37000, Thailand; Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen, 37000, Thailand
- 6Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen, 37000, Thailand
- 7Unit of Water and Food Analysis, Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen, 37000, Thailand; Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen, 37000, Thailand; Corresponding author at: Department of Medical Science, Amnatcharoen Campus, Mahidol University, Amnatcharoen 37000, Thailand.
Abstract
The draft genome sequence dataset of Serratia nematodiphila strain AMFE 036/1 was generated from an isolate obtained from Nham, a traditional Thai fermented beef sausage in Amnatcharoen province, Thailand. Whole-genome sequencing was performed using the DNBSEQ platform. Following quality filtering and preprocessing, 4,975,255 high-quality paired-end reads were retained, corresponding to an average sequencing depth of approximately 44×. A 5.4-Mbp draft genome comprising 53 contigs was generated by de novo assembly, with an N50 value of 245,680 bp and a GC content of 59.5%. Genome quality assessment using CheckM2 indicated a completeness of 100.00% and contamination of 0.07%, while BUSCO analysis yielded a completeness of 96.4% (pseudomonadota_odb12.2); both estimates indicate a near-complete genome. Genome annotation using the NCBI Prokaryotic Genome Annotation Pipeline identified 5,196 predicted genes, including 5,111 coding DNA sequences and 85 RNA genes. Functional annotation identified genes associated with hydrolytic enzyme activities, including five putative extracellular serralysin-family metalloprotease genes (EC 3.4.24.40), three of which were co-localised with cognate Inh-type metalloprotease inhibitor genes. Secondary metabolite biosynthetic gene cluster (BGC) prediction using antiSMASH identified ten BGC regions across the genome, of which two exhibited 100% similarity to known clusters in the MIBiG database, corresponding to prodigiosin and yersinopine biosynthetic pathways. Genome-based taxonomic analyses confirmed the closest relationship with S. nematodiphila DSM 21420 T (dDDH, 95.30%; ANIb, 99.17%; ANIm, 99.39%). The dataset can be used for comparative genomics, phylogenomics, genome mining, and functional annotation studies involving food-associated Serratia species.
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BibTeX
@article{yasawong2026draft,
title = {{Draft genome sequence data of}},
author = {Montri Yasawong and Manassanan Phatcharaharikarn and Thunwarat Songngamsuk and Parweenuch Santaweesuk and Prapimpun Wongchitrat and Wuthiwat Ruangchai and Prasit Palittapongarnpim and Wongwarut Boonyanugomol and Arunee Thong-on and Kamolchanok Rukseree},
journal = {Data in Brief},
year = {2026},
month = aug,
doi = {10.1016/j.dib.2026.113353},
url = {https://doi.org/10.1016/j.dib.2026.113353},
note = {CC BY-NC},
}
RIS
TY - JOUR
TI - Draft genome sequence data of
AU - Montri Yasawong
AU - Manassanan Phatcharaharikarn
AU - Thunwarat Songngamsuk
AU - Parweenuch Santaweesuk
AU - Prapimpun Wongchitrat
AU - Wuthiwat Ruangchai
AU - Prasit Palittapongarnpim
AU - Wongwarut Boonyanugomol
AU - Arunee Thong-on
AU - Kamolchanok Rukseree
PY - 2026
DA - 2026/08/01
JO - Data in Brief
DO - 10.1016/j.dib.2026.113353
UR - https://doi.org/10.1016/j.dib.2026.113353
AB - The draft genome sequence dataset of Serratia nematodiphila strain AMFE 036/1 was generated from an isolate obtained from Nham, a traditional Thai fermented beef sausage in Amnatcharoen province, Thailand. Whole-genome sequencing was performed using the DNBSEQ platform. Following quality filtering and preprocessing, 4,975,255 high-quality paired-end reads were retained, corresponding to an average sequencing depth of approximately 44×. A 5.4-Mbp draft genome comprising 53 contigs was generated by de novo assembly, with an N50 value of 245,680 bp and a GC content of 59.5%. Genome quality assessment using CheckM2 indicated a completeness of 100.00% and contamination of 0.07%, while BUSCO analysis yielded a completeness of 96.4% (pseudomonadota_odb12.2); both estimates indicate a near-complete genome. Genome annotation using the NCBI Prokaryotic Genome Annotation Pipeline identified 5,196 predicted genes, including 5,111 coding DNA sequences and 85 RNA genes. Functional annotation identified genes associated with hydrolytic enzyme activities, including five putative extracellular serralysin-family metalloprotease genes (EC 3.4.24.40), three of which were co-localised with cognate Inh-type metalloprotease inhibitor genes. Secondary metabolite biosynthetic gene cluster (BGC) prediction using antiSMASH identified ten BGC regions across the genome, of which two exhibited 100% similarity to known clusters in the MIBiG database, corresponding to prodigiosin and yersinopine biosynthetic pathways. Genome-based taxonomic analyses confirmed the closest relationship with S. nematodiphila DSM 21420 T (dDDH, 95.30%; ANIb, 99.17%; ANIm, 99.39%). The dataset can be used for comparative genomics, phylogenomics, genome mining, and functional annotation studies involving food-associated Serratia species.
SN - 2352-3409
ER -