HOU Liyuan,JIANG Jingwei,JIANG Jiandong,et al.Isolation of Pseudoxanthomonas sp.J1 and bioinformatics analysis of lignocellulose-degrading genes[J].Journal of Nanjing Agricultural University,2016,39(4):573-581.[doi:10.7685/jnau.201512026]





Isolation of Pseudoxanthomonas sp.J1 and bioinformatics analysis of lignocellulose-degrading genes
侯丽媛 江经纬 蒋建东 许志辉 梁志清
南京农业大学生物信息学中心/生命科学学院, 江苏 南京210095
HOU Liyuan JIANG Jingwei JIANG Jiandong XU Zhihui LIANG Zhiqing
Bioinformatics Center/College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
lignocellulosePseudoxanthomonas sp.bacterial genomebioinformaticsbioethanol
[目的] 本研究旨在发掘木质纤维素降解菌种资源,并寻找木质纤维素降解关键酶基因和代谢通路。[方法] 以纤维素为唯一碳源,从土壤、腐叶混合物中分离出27株具有纤维素降解能力的细菌。通过测定纤维素酶活力,将降解效果最优菌株进行全基因组测序。通过与同属细菌的全基因组序列的比对构建贝叶斯树。[结果] 菌株J1内切纤维素酶、滤纸酶和β-葡萄糖苷酶活力峰值分别为0.39、0.18和0.11 IU·mL-1,并将菌株J1鉴定为假黄单胞菌(Pseudoxanthomonas sp.)。Clusters of Orthologous Groups (COG)和Carbohydrate-Active Enzyme Database (CAZy)等基因数据库注释结果表明:菌株J1具有木质纤维素降解酶基因。代谢通路预测表明:该菌株具有利用纤维素生成乙醇的代谢通路。[结论] 本研究分离筛选到的假黄单胞菌株J1可以作为生物乙醇发酵的候选菌株,同时测序获得的全基因组数据将为假黄单胞菌属降解木质纤维素的途径提供依据。
[Objectives] In order to isolate lignocellulosic bacteria and find important enzyme and pathway of lignocellulose degradation from its genome,the present study was designed to isolate high-performance lignocellulosic bacteria from the soil.[Methods] Cellulose was used as the sole carbon source to isolate strains with high cellulose enzyme activities from rotten leaves. The cellulose-degrading activities were measured,and the complete genome were sequenced on the MiSeq platform. Taxonomy of strain J1 was investigated through the comparisons of its genomic sequencing with five available genomes from other bacteria. Whole genome of strain J1 was annotated by blasting on COG databases,CAZy databases and so on.[Results] Over 27 cellulose-degrading bacteria were isolated and strain J1 was finally selected. The peak value of endocellullase,filter paper enzyme activity and β-glucosidase were 0.39,0.18 and 0.11 IU·mL-1,respectively. Strain J1 was primarily identified as Pseudoxanthomonas sp. The predicted lignocellulose-degrading genes on the genome of strain J1 include β-glucosidase gene and endo-β-1,4-glucanase gene and so on. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed strain J1 could convert cellulose to ethanol.[Conclusions] Strain J1 has high lignocellulose-degrading activity and may utilize cellulose to produce ethanol. Strain J1 is a candidate for ethanol fermentative production and its genomic information provided insights into lignocellulose-degrading pathways in the environment.


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