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Isolation, identification, whole genome sequencing, and functional analysis of a frog-derived chitin-degrading bacterium JD-3
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Rui WANG1, Xingrong LIN1, Wanting WANG1, Yingfang SHEN1, 2, 3, Xuze ZHANG1, 2, 3, *
Acta Microbiologica Sinica | 2025, 65(4) : 1571 - 1586
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Acta Microbiologica Sinica | 2025, 65(4): 1571-1586
• Microbial resources isolation, classification and evaluation •
Isolation, identification, whole genome sequencing, and functional analysis of a frog-derived chitin-degrading bacterium JD-3
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Rui WANG1, Xingrong LIN1, Wanting WANG1, Yingfang SHEN1, 2, 3, Xuze ZHANG1, 2, 3, *
Affiliations
  • 1.College of Ecological Environment and Resources, Qinghai Minzu University, Xining, Qinghai, China
  • 2.Qinghai Provincial Key Laboratory of High-value Utilization of Characteristic Economic Plants, Xining, Qinghai, China
  • 3.Qinghai-Tibet Plateau Key Laboratory of Resource Chemistry and Ecological Environment Protection of the National Ethnic Affairs Commission, Xining, Qinghai, China
Published: 2025-04-04 doi: 10.13343/j.cnki.wsxb.20240733
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[Objective] To establish a theoretical foundation for the application and development of chitinases, this study isolated and screened chitin-degrading bacteria from the intestines of amphibians, optimized their fermentation conditions, characterized their enzymatic properties, and analyzed their whole genomes. [Methods] A strain capable of producing chitinase was isolated from the intestinal contents of Rana kukunoris and identified based on morphological characteristics and molecular biological evidence. The enzyme production conditions of the strain were optimized by single factor and response surface methodology (RSM) experiments, and the enzymatic properties were studied. Whole genome sequencing was carried out for identification of the chitinase gene family. [Results] The chitin-degrading strain JD-3 was identified as Carnobacteriummaltaromaticum. This strain achieved the highest enzyme activity of 12 mU/mL after fermentation with the inoculum amount of 4% at 31.4 ℃ and initial pH 4.9 for 2.47 d. The optimal reaction conditions of the enzyme were 20 ℃ and pH 3.0, and the enzyme maintained good stability at room temperature and under acidic conditions. The genome of JD-3 was 4 195 636 bp long, containing 6 circular contigs, 63 tRNA genes, 19 rRNA genes, and 3 864 protein coding sequences. Two chitinase genes belonging to the glycoside hydrolase family 18 (GH18) were identified and phylogenetically classified into two distinct categories. [Conclusion] We isolated an acid-tolerant chitin-degrading bacterium, C. maltaromaticum JD-3, from the intestines of plateau amphibians. The findings provide new insights into the development and utilization of microbial resources in the digestive systems of animals.

Rana kukunoris  /  gut microbiota  /  chitin-degrading bacterium  /  optimization of enzyme production conditions  /  bacterial whole genome sequence
Rui WANG, Xingrong LIN, Wanting WANG, Yingfang SHEN, Xuze ZHANG. Isolation, identification, whole genome sequencing, and functional analysis of a frog-derived chitin-degrading bacterium JD-3[J]. Acta Microbiologica Sinica, 2025 , 65 (4) : 1571 -1586 . DOI: 10.13343/j.cnki.wsxb.20240733
Funding
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  • National Natural Science Foundation of China(32360260)
  • Natural Science Foundation of Qinghai Province(2020-ZJ-965Q)
  • Kunlun Talents Program of Qinghai Province(QHKLYC-GDCXCY-2023-138)
  • Qinghai Minzu University Special Project(ESDYJ24)
  • Qinghai Minzu University Industry-education Integration Joint Postgraduate Training Base Construction Project
  • Qinghai Minzu University School-level Teaching Achievement Cultivation Project
Appendix
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Year 2025 volume 65 Issue 4
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213
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Article Info
doi: 10.13343/j.cnki.wsxb.20240733
  • Receive Date：2024-11-15
  • Online Date：2026-02-06
  • Published：2025-04-04
Article Data
Affiliations
History
  • Received：2024-11-15
  • Accepted：2025-01-20
Funding
National Natural Science Foundation of China(32360260)
Natural Science Foundation of Qinghai Province(2020-ZJ-965Q)
Kunlun Talents Program of Qinghai Province(QHKLYC-GDCXCY-2023-138)
Qinghai Minzu University Special Project(ESDYJ24)
Qinghai Minzu University Industry-education Integration Joint Postgraduate Training Base Construction Project
Qinghai Minzu University School-level Teaching Achievement Cultivation Project
Affiliations
    1.College of Ecological Environment and Resources, Qinghai Minzu University, Xining, Qinghai, China
    2.Qinghai Provincial Key Laboratory of High-value Utilization of Characteristic Economic Plants, Xining, Qinghai, China
    3.Qinghai-Tibet Plateau Key Laboratory of Resource Chemistry and Ecological Environment Protection of the National Ethnic Affairs Commission, Xining, Qinghai, China

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Citations
表12种不同金属材料的力学参数
科
Family		 属数
Number of
genus		 种数
Number of
species		 占总种数比例
Percentage of
total species (%)		 属
Genus		 种数
Number of
species		 占总种数比例
Percentage of total
species (%)
鹅膏菌科Amanitaceae 2 11 5.26 鹅膏菌属 Amanita 10 4.78
小菇科 Mycenaceae 2 12 5.74 丝盖伞属 Inocybe 5 2.39
多孔菌科 Polyporaceae 8 14 6.70 蜡蘑属 Laccaria 5 2.39
红菇科 Russulaceae 3 23 11.00 小皮伞属 Marasmius 6 2.87
小菇属 Mycena 11 5.26
光柄菇属 Pluteus 5 2.39
红菇属 Russula 17 8.13
栓菌属 Trametes 5 2.39
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