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Han L, Li Y, Meng X, Chu G, Guo Y, Noman M, Dong Y, Li H, Yang J, Du L. De novo transcriptome sequencing of Paecilomyces tenuipes revealed genes involved in adenosine biosynthesis. Mol Med Rep 2020; 22:3976-3984. [PMID: 32901833 PMCID: PMC7533470 DOI: 10.3892/mmr.2020.11477] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Accepted: 08/06/2020] [Indexed: 11/06/2022] Open
Abstract
The use of Paecilomyces tenuipes (P. tenuipes), a Chinese medicinal fungus in scientific research, is limited due to its low adenosine content. To improve adenosine production, the present study investigated the gene network of adenosine biosynthesis in P. tenuipes via transcriptome analysis. Mycelia of P. tenuipes cultured for 24 h (PT24), 102 h (PT102) and 196 h (PT192) were subjected to RNA sequencing. In total, 13,353 unigenes were obtained. Based on sequence similarity, 8,099 unigenes were annotated with known proteins. Of these 8,099 unigenes, 5,123 had functions assigned based on Gene Ontology terms while 4,158 were annotated based on the Eukaryotic Orthologous Groups database. Moreover, 1,272 unigenes were mapped to 281 Kyoto Encyclopedia of Genes and Genomes pathways. In addition, the differential gene expression of the three libraries was also performed. A total of 601, 1,658 and 628 differentially expressed genes (DEGs) were detected in PT24 vs. PT102, PT24 vs. PT192 and PT102 vs. PT192 groups, respectively. Reverse transcription‑quantitative PCR was performed to analyze the expression levels of 14 DEGs putatively associated with adenosine biosynthesis in P. tenuipes. The results showed that two DEGs were closely associated with adenosine accumulation of P. tenuipes. The present study not only provides an improved understanding of the genetic information of P. tenuipes but also the findings can be used to aid research into P. tenuipes.
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Affiliation(s)
- Long Han
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Yaying Li
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Xinyu Meng
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Guodong Chu
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Yongxin Guo
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Muhammad Noman
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Yuanyuan Dong
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Haiyan Li
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Jing Yang
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
| | - Linna Du
- Ministry of Education Engineering Research Center of Bioreactor and Pharmaceutical Development, School of Life Science, Jilin Agricultural University, Changchun, Jilin 130118, P.R. China
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Dangel ML, Dettmann JC, Haßelbarth S, Krogull M, Schakat M, Kreikemeyer B, Fiedler T. The 5'-nucleotidase S5nA is dispensable for evasion of phagocytosis and biofilm formation in Streptococcus pyogenes. PLoS One 2019; 14:e0211074. [PMID: 30703118 PMCID: PMC6354987 DOI: 10.1371/journal.pone.0211074] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2018] [Accepted: 01/07/2019] [Indexed: 12/04/2022] Open
Abstract
5’-nucleotidases are widespread among all domains of life. The enzymes hydrolyze phosphate residues from nucleotides and nucleotide derivatives. In some pathobiontic bacteria, 5’-nucleotidases contribute to immune evasion by dephosphorylating adenosine mono-, di-, or tri-phosphates, thereby either decreasing the concentration of pro-inflammatory ATP or increasing the concentration of anti-inflammatory adenosine, both acting on purinergic receptors of phagocytic cells. The strict human pathogen Streptococcus pyogenes expresses a surface-associated 5’-nucleotidase (S5nA) under infection conditions that has previously been discussed as a potential virulence factor. Here we show that deletion of the S5nA gene does not significantly affect growth in human blood, evasion of phagocytosis by neutrophils, formation of biofilms and virulence in an infection model with larvae of the greater wax moth Galleria mellonella in S. pyogenes serotypes M6, M18 and M49. Hence, the surface-associated 5’-nucleotidase S5nA seems dispensable for evasion of phagocytosis and biofilm formation in S. pyogenes.
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Affiliation(s)
- Marcel-Lino Dangel
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Johann-Christoph Dettmann
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Steffi Haßelbarth
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Martin Krogull
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Miriam Schakat
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Bernd Kreikemeyer
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
| | - Tomas Fiedler
- Rostock University Medical Centre; Institute of Medical Microbiology, Virology, and Hygiene, Rostock, Germany
- * E-mail:
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Ma W, Zhang D, Li G, Liu J, He G, Zhang P, Yang L, Zhu H, Xu N, Liang S. Antibacterial mechanism of daptomycin antibiotic against Staphylococcus aureus based on a quantitative bacterial proteome analysis. J Proteomics 2016; 150:242-251. [PMID: 27693894 DOI: 10.1016/j.jprot.2016.09.014] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Revised: 09/06/2016] [Accepted: 09/26/2016] [Indexed: 02/05/2023]
Abstract
Daptomycin (DAP) is a novel lipopeptide antibiotic which exhibits excellent antibacterial activity against most clinically relevant Gram-positive bacteria, but the DAP-targeting protein molecules against host bacterial infection are far from clear. In order to discover bacterial protein response to DAP treatment, an iTRAQ-based quantitative proteomic analysis was applied to identify differential bacterial proteome profiling of Staphylococcus aureus (S. aureus) ATCC 25923 to 0.125μg/ml DAP exposure. Totally 51 bacterial proteins were significantly changed with DAP treatment, among which 34 proteins were obviously up-regulated and 17 proteins were down-regulated. Meanwhile, 139 bacterial cell membrane (CM) proteins were identified, and 7 CM proteins were significantly altered to decrease CM potential to disrupt bacterial cell membrane. Especially the up-regulation of NDK and down-regulation of NT5 in several S. aureus strains are validated to be a universal variation tendency response to DAP treatment. Under DAP exposure, bacterial membrane potential is decreased and cell membrane is disrupted, and bacterial chromosome is aggregated, which contributes to bacterial DNA rapid release and induces bacteria death within 2-5h. In general, multiple bacterial protein expressions are changed in response to DAP antibiotic exposure, which disrupts host bacterial physiology by multiple cellular levels. To our knowledge, this is the first time to exactly identify infectious bacterial proteins in response to DAP antibiotic action. Our findings help better understand DAP antibacterial mechanism and develop novel DAP derivatives against the upcoming antibiotic-resistant bacterial infection. BIOLOGICAL SIGNIFICANCE DAP is a novel lipopeptide antibiotic that it exhibits excellent in vitro activity against most clinically relevant Gram-positive bacteria, and the investigations on its pharmaceutical action mode of DAP have dramatically increased in the past decade due to its unique antimicrobial mechanism. However, the target molecules of DAP acting on the infectious bacteria, are far from clear. The state-of-the-art quantitative proteomic technologies provide new avenues to uncover underlying mechanism of antibiotics. Our research main aims to identify bacterial proteome profiling of host strain S. aureus response to DAP treatment through an iTRAQ-based quantitative proteomic analysis, which contributes to understand DAP efficient antibacterial activity and the microbial-antibiotic interactions.
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Affiliation(s)
- Wen Ma
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Dan Zhang
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Guoshun Li
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Jingjing Liu
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Gu He
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Peng Zhang
- Department of Urinary Surgery, West China Hospital, West China Medical School, Sichuan University, Chengdu 610041, PR China
| | - Li Yang
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China
| | - Hongxia Zhu
- Laboratory of Cell and Molecular Biology, State Key Laboratory of Molecular Oncology, Cancer Institute & Cancer Hospital, Chinese Academy of Medical Sciences, Beijing 100034, PR China
| | - Ningzhi Xu
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China; Laboratory of Cell and Molecular Biology, State Key Laboratory of Molecular Oncology, Cancer Institute & Cancer Hospital, Chinese Academy of Medical Sciences, Beijing 100034, PR China
| | - Shufang Liang
- State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University/Collaborative Innovation Center for Biotherapy, Chengdu 610041, PR China.
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Mendes JS, Santiago ADS, Toledo MAS, Rosselli-Murai LK, Favaro MTP, Santos CA, Horta MAC, Crucello A, Beloti LL, Romero F, Tasic L, de Souza AA, de Souza AP. VapD in Xylella fastidiosa Is a Thermostable Protein with Ribonuclease Activity. PLoS One 2015; 10:e0145765. [PMID: 26694028 PMCID: PMC4687846 DOI: 10.1371/journal.pone.0145765] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2015] [Accepted: 12/08/2015] [Indexed: 01/15/2023] Open
Abstract
Xylella fastidiosa strain 9a5c is a gram-negative phytopathogen that is the causal agent of citrus variegated chlorosis (CVC), a disease that is responsible for economic losses in Brazilian agriculture. The most well-known mechanism of pathogenicity for this bacterial pathogen is xylem vessel occlusion, which results from bacterial movement and the formation of biofilms. The molecular mechanisms underlying the virulence caused by biofilm formation are unknown. Here, we provide evidence showing that virulence-associated protein D in X. fastidiosa (Xf-VapD) is a thermostable protein with ribonuclease activity. Moreover, protein expression analyses in two X. fastidiosa strains, including virulent (Xf9a5c) and nonpathogenic (XfJ1a12) strains, showed that Xf-VapD was expressed during all phases of development in both strains and that increased expression was observed in Xf9a5c during biofilm growth. This study is an important step toward characterizing and improving our understanding of the biological significance of Xf-VapD and its potential functions in the CVC pathosystem.
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Affiliation(s)
- Juliano S. Mendes
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - André da S. Santiago
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Marcelo A. S. Toledo
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Luciana K. Rosselli-Murai
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Marianna T. P. Favaro
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Clelton A. Santos
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Maria Augusta C. Horta
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Aline Crucello
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Lilian L. Beloti
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
| | - Fabian Romero
- Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-970
| | - Ljubica Tasic
- Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-970
| | | | - Anete P. de Souza
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, SP, Brazil, CEP 13083-875
- Departamento de Biologia Vegetal, Instituto de Biologia, Universidade Estadual de Campinas, SP, Brazil, CEP 13083-862
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Kwon WS, Rahman MS, Lee JS, Yoon SJ, Park YJ, Pang MG. Discovery of predictive biomarkers for litter size in boar spermatozoa. Mol Cell Proteomics 2015; 14:1230-40. [PMID: 25693803 DOI: 10.1074/mcp.m114.045369] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2014] [Indexed: 11/06/2022] Open
Abstract
Conventional semen analysis has been used for prognosis and diagnosis of male fertility. Although this tool is essential for providing initial quantitative information about semen, it remains a subject of debate. Therefore, development of new methods for the prognosis and diagnosis of male fertility should be seriously considered for animal species of economic importance as well as for humans. In the present study, we applied a comprehensive proteomic approach to identify global protein biomarkers in boar spermatozoa in order to increase the precision of male fertility prognoses and diagnoses. We determined that l-amino acid oxidase, mitochondrial malate dehydrogenase 2, NAD (MDH2), cytosolic 5'-nucleotidase 1B, lysozyme-like protein 4, and calmodulin (CALM) were significantly and abundantly expressed in high-litter size spermatozoa. We also found that equatorin, spermadhesin AWN, triosephosphate isomerase (TPI), Ras-related protein Rab-2A (RAB2A), spermadhesin AQN-3, and NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 (NDUFS2) were significantly and abundantly expressed in low-litter size spermatozoa (>3-fold). Moreover, RAB2A, TPI, and NDUFS2 were negatively correlated with litter size, whereas CALM and MDH2 were positively correlated. This study provides novel biomarkers for the prediction of male fertility. To the best of our knowledge, this is the first work that shows significantly increased litter size using male fertility biomarkers in a field trial. Moreover, these protein markers may provide new developmental tools for the selection of superior sires as well as for the prognosis and diagnosis of male fertility.
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Affiliation(s)
- Woo-Sung Kwon
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea
| | - Md Saidur Rahman
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea
| | - June-Sub Lee
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea
| | - Sung-Jae Yoon
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea
| | - Yoo-Jin Park
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea
| | - Myung-Geol Pang
- From the ‡Department of Animal Science & Technology, Chung-Ang University, Anseong, Gyeonggi-do 456-756, Republic of Korea.
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