Genome-guided characterization of
- 1State Key Laboratory Incubation Base for Conservation and Utilization of Bio-Resource in Tarim Basin, Tarim University, Alar, 843300, China
- 2Corresponding author.
Abstract
Saline–alkaline soils select for microorganisms capable of tolerating high salinity and alkaline pH. Here, strain TRM 82005ᵀ, isolated from Lop Nur, Xinjiang, China, was characterized using polyphasic taxonomy and comparative genomic analysis with seven related Nocardiopsis type strains. The strain formed branched substrate and aerial mycelia that fragmented into rod-shaped or suboval elements. In independent assays, it grew at 4–50 °C, pH 6.0–11.0 and 1–15% (w/v) NaCl, with optima of 28 °C, pH 9.0 and 5% (w/v) NaCl. Its 6.19-Mb draft genome had a DNA G+C content of 70.33 mol% and contained 5394 predicted coding sequences. Genome relatedness to the closest of the seven reference type-strain genomes included in the fixed comparative dataset, Nocardiopsis sinuspersici DSM 45277ᵀ, was 90.25% average nucleotide identity and 37.2% digital DNA–DNA hybridization (GGDC formula d4; 95% confidence interval, 34.8–39.8%), below accepted species thresholds. Curated annotations identified candidate functions related to Na⁺/H⁺ antiport, K⁺ uptake, compatible-solute metabolism, pH homeostasis and oxidative-stress defence. CAZy analysis predicted 166 carbohydrate-active enzyme domains, and archived antiSMASH output identified 15 putative biosynthetic gene clusters; cross-strain BGC counts were interpreted descriptively because different antiSMASH versions were used. These data support the proposal of Nocardiopsis lopnurensis sp. nov. and identify genomic features potentially associated with halotolerance and alkalitolerance. Their expression, functional contributions and coordinated activity under combined saline and alkaline conditions remain to be tested experimentally.
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BibTeX
@article{wen2026genomeguided,
title = {{Genome-guided characterization of}},
author = {Feng Wen and Shi-Hao Niu and Yu-Ting Wang and Lian-Qiang Li and Yuan-Yuan Zhang and Qian-Nan Chen and Zhan-Feng Xia},
journal = {Current Research in Microbial Sciences},
year = {2026},
month = oct,
doi = {10.1016/j.crmicr.2026.100669},
url = {https://doi.org/10.1016/j.crmicr.2026.100669},
note = {CC BY-NC 4.0},
}
RIS
TY - JOUR
TI - Genome-guided characterization of
AU - Feng Wen
AU - Shi-Hao Niu
AU - Yu-Ting Wang
AU - Lian-Qiang Li
AU - Yuan-Yuan Zhang
AU - Qian-Nan Chen
AU - Zhan-Feng Xia
PY - 2026
DA - 2026/10/14
JO - Current Research in Microbial Sciences
DO - 10.1016/j.crmicr.2026.100669
UR - https://doi.org/10.1016/j.crmicr.2026.100669
AB - Saline–alkaline soils select for microorganisms capable of tolerating high salinity and alkaline pH. Here, strain TRM 82005ᵀ, isolated from Lop Nur, Xinjiang, China, was characterized using polyphasic taxonomy and comparative genomic analysis with seven related Nocardiopsis type strains. The strain formed branched substrate and aerial mycelia that fragmented into rod-shaped or suboval elements. In independent assays, it grew at 4–50 °C, pH 6.0–11.0 and 1–15% (w/v) NaCl, with optima of 28 °C, pH 9.0 and 5% (w/v) NaCl. Its 6.19-Mb draft genome had a DNA G+C content of 70.33 mol% and contained 5394 predicted coding sequences. Genome relatedness to the closest of the seven reference type-strain genomes included in the fixed comparative dataset, Nocardiopsis sinuspersici DSM 45277ᵀ, was 90.25% average nucleotide identity and 37.2% digital DNA–DNA hybridization (GGDC formula d4; 95% confidence interval, 34.8–39.8%), below accepted species thresholds. Curated annotations identified candidate functions related to Na⁺/H⁺ antiport, K⁺ uptake, compatible-solute metabolism, pH homeostasis and oxidative-stress defence. CAZy analysis predicted 166 carbohydrate-active enzyme domains, and archived antiSMASH output identified 15 putative biosynthetic gene clusters; cross-strain BGC counts were interpreted descriptively because different antiSMASH versions were used. These data support the proposal of Nocardiopsis lopnurensis sp. nov. and identify genomic features potentially associated with halotolerance and alkalitolerance. Their expression, functional contributions and coordinated activity under combined saline and alkaline conditions remain to be tested experimentally.
SN - 2666-5174
ER -