Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA
Fungi have a promising application prospect in the remediation of heavy-metal wastewater pollution which is a sticky global problem. New marine-derived strain Penicillium janthinellum P1 is of high chromium resistance. However, a comprehensive study of the transcriptomics in Penicillium janthinellum...
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| Format: | Article |
| Language: | English |
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Elsevier
2022-03-01
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| Series: | Ecotoxicology and Environmental Safety |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S014765132200166X |
| _version_ | 1819349628973219840 |
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| author | Shengnan Bao Jiawei Mu Pingchuan Yin Huiying Chen Sheng Zhou |
| author_facet | Shengnan Bao Jiawei Mu Pingchuan Yin Huiying Chen Sheng Zhou |
| author_sort | Shengnan Bao |
| collection | DOAJ |
| description | Fungi have a promising application prospect in the remediation of heavy-metal wastewater pollution which is a sticky global problem. New marine-derived strain Penicillium janthinellum P1 is of high chromium resistance. However, a comprehensive study of the transcriptomics in Penicillium janthinellum P1 strains is lacking. Firstly, the changing trends of a series of physiological and biochemical indices of P1 strain at 0 M and 1 M Cr concentration were investigated to track the ROS variation. Secondly, transcriptome sequencing of P1 was performed by RNA-Seq sequencing technology. The transcriptome data indicated that 12,352 coding protein regions were predicted, and 6655 differentially expressed genes were identified by DESeq2, of which 4234 genes were up-regulated, and 2421 genes down-regulated. Through further co-expression network of WGCNA analysis, the filtered unigenes were clustered into 19 modules. Combined with the physiological and biochemical findings, the three modules with the highest correlation with the six traits were selected to construct the network, and 52 hub genes were obtained. Furthermore, 10 speculative hub genes related to chromium resistance were selected and verified by real-time PCR. The results were in line with the expected experimental assumption. These results improve our understanding of the transcriptomic dimensions of the high chromium resistance of Penicillium janthinellum P1 strains. |
| first_indexed | 2024-12-24T19:03:33Z |
| format | Article |
| id | doaj.art-b9c0f18a74bd4dd59f89c9280339d710 |
| institution | Directory Open Access Journal |
| issn | 0147-6513 |
| language | English |
| last_indexed | 2024-12-24T19:03:33Z |
| publishDate | 2022-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Ecotoxicology and Environmental Safety |
| spelling | doaj.art-b9c0f18a74bd4dd59f89c9280339d7102022-12-21T16:43:10ZengElsevierEcotoxicology and Environmental Safety0147-65132022-03-01233113326Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNAShengnan Bao0Jiawei Mu1Pingchuan Yin2Huiying Chen3Sheng Zhou4College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China; Guangxi Key Laboratory of Electrochemical and Magneto-chemical Functional Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of ChinaCollege of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China; Guangxi Key Laboratory of Electrochemical and Magneto-chemical Functional Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of ChinaCollege of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China; Guangxi Key Laboratory of Electrochemical and Magneto-chemical Functional Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of ChinaCollege of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China; Guangxi Key Laboratory of Electrochemical and Magneto-chemical Functional Materials, College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China; Corresponding author at: College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541006, People’s Republic of China.College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou 510225, People’s Republic of China; Corresponding author.Fungi have a promising application prospect in the remediation of heavy-metal wastewater pollution which is a sticky global problem. New marine-derived strain Penicillium janthinellum P1 is of high chromium resistance. However, a comprehensive study of the transcriptomics in Penicillium janthinellum P1 strains is lacking. Firstly, the changing trends of a series of physiological and biochemical indices of P1 strain at 0 M and 1 M Cr concentration were investigated to track the ROS variation. Secondly, transcriptome sequencing of P1 was performed by RNA-Seq sequencing technology. The transcriptome data indicated that 12,352 coding protein regions were predicted, and 6655 differentially expressed genes were identified by DESeq2, of which 4234 genes were up-regulated, and 2421 genes down-regulated. Through further co-expression network of WGCNA analysis, the filtered unigenes were clustered into 19 modules. Combined with the physiological and biochemical findings, the three modules with the highest correlation with the six traits were selected to construct the network, and 52 hub genes were obtained. Furthermore, 10 speculative hub genes related to chromium resistance were selected and verified by real-time PCR. The results were in line with the expected experimental assumption. These results improve our understanding of the transcriptomic dimensions of the high chromium resistance of Penicillium janthinellum P1 strains.http://www.sciencedirect.com/science/article/pii/S014765132200166XPenicillium janthinellum P1Heavy metal resistanceDifferentially expressed genes (DEGs)Transcriptomic analysisWeighted gene co-expression network analysis (WGCNA) |
| spellingShingle | Shengnan Bao Jiawei Mu Pingchuan Yin Huiying Chen Sheng Zhou Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA Ecotoxicology and Environmental Safety Penicillium janthinellum P1 Heavy metal resistance Differentially expressed genes (DEGs) Transcriptomic analysis Weighted gene co-expression network analysis (WGCNA) |
| title | Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA |
| title_full | Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA |
| title_fullStr | Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA |
| title_full_unstemmed | Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA |
| title_short | Exploration of anti-chromium mechanism of marine Penicillium janthinellum P1 through combinatorial transcriptomic analysis and WGCNA |
| title_sort | exploration of anti chromium mechanism of marine penicillium janthinellum p1 through combinatorial transcriptomic analysis and wgcna |
| topic | Penicillium janthinellum P1 Heavy metal resistance Differentially expressed genes (DEGs) Transcriptomic analysis Weighted gene co-expression network analysis (WGCNA) |
| url | http://www.sciencedirect.com/science/article/pii/S014765132200166X |
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