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Zhang Z, Jin F, Huang J, Mandal SD, Zeng L, Zafar J, Xu X. MicroRNA Targets PAP1 to Mediate Melanization in Plutella xylostella (Linnaeus) Infected by Metarhizium anisopliae. Int J Mol Sci 2024; 25:1140. [PMID: 38256210 PMCID: PMC10816858 DOI: 10.3390/ijms25021140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2023] [Revised: 01/10/2024] [Accepted: 01/11/2024] [Indexed: 01/24/2024] Open
Abstract
MicroRNAs (miRNAs) play a pivotal role in important biological processes by regulating post-transcriptional gene expression and exhibit differential expression patterns during development, immune responses, and stress challenges. The diamondback moth causes significant economic damage to crops worldwide. Despite substantial advancements in understanding the molecular biology of this pest, our knowledge regarding the role of miRNAs in regulating key immunity-related genes remains limited. In this study, we leveraged whole transcriptome resequencing data from Plutella xylostella infected with Metarhizium anisopliae to identify specific miRNAs targeting the prophenoloxidase-activating protease1 (PAP1) gene and regulate phenoloxidase (PO) cascade during melanization. Seven miRNAs (pxy-miR-375-5p, pxy-miR-4448-3p, pxy-miR-279a-3p, pxy-miR-3286-3p, pxy-miR-965-5p, pxy-miR-8799-3p, and pxy-miR-14b-5p) were screened. Luciferase reporter assays confirmed that pxy-miR-279a-3p binds to the open reading frame (ORF) and pxy-miR-965-5p to the 3' untranslated region (3' UTR) of PAP1. Our experiments demonstrated that a pxy-miR-965-5p mimic significantly reduced PAP1 expression in P. xylostella larvae, suppressed PO activity, and increased larval mortality rate. Conversely, the injection of pxy-miR-965-5p inhibitor could increase PAP1 expression and PO activity while decreasing larval mortality rate. Furthermore, we identified four LncRNAs (MSTRG.32910.1, MSTRG.7100.1, MSTRG.6802.1, and MSTRG.22113.1) that potentially interact with pxy-miR-965-5p. Interference assays using antisense oligonucleotides (ASOs) revealed that silencing MSTRG.7100.1 and MSTRG.22113.1 increased the expression of pxy-miR-965-5p. These findings shed light on the potential role of pxy-miR-965-5p in the immune response of P. xylostella to M. anisopliae infection and provide a theoretical basis for biological control strategies targeting the immune system of this pest.
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Affiliation(s)
| | | | | | | | | | | | - Xiaoxia Xu
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou 510642, China; (Z.Z.); (F.J.); (J.H.); (S.D.M.); (L.Z.); (J.Z.)
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De Mandal S, Srinivasan S, Jeon J. Complete genome sequence of Deinococcus rubellus Ant6 isolated from the fish muscle in the Antarctic Ocean. Front Bioeng Biotechnol 2023; 11:1257705. [PMID: 37908375 PMCID: PMC10614293 DOI: 10.3389/fbioe.2023.1257705] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Accepted: 09/25/2023] [Indexed: 11/02/2023] Open
Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Yeungnam University, Gyeongsan, Republic of Korea
| | - Sathiyaraj Srinivasan
- Department of Bio and Environmental Technology, College of Natural Science, Seoul Women’s University, Seoul, Republic of Korea
| | - Junhyun Jeon
- Department of Biotechnology, Yeungnam University, Gyeongsan, Republic of Korea
- Plant Immunity Research Center, Seoul National University, Seoul, Republic of Korea
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De Mandal S, Jeon J. Phyllosphere Microbiome in Plant Health and Disease. Plants (Basel) 2023; 12:3481. [PMID: 37836221 PMCID: PMC10575124 DOI: 10.3390/plants12193481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2023] [Revised: 09/24/2023] [Accepted: 09/27/2023] [Indexed: 10/15/2023]
Abstract
The phyllosphere refers to the aboveground surface of plants colonized by diverse microorganisms. Microbes inhabiting this environment play an important role in enhancing the host's genomic and metabolic capabilities, including defense against pathogens. Compared to the large volume of studies on rhizosphere microbiome for plant health and defense, our understanding of phyllosphere microbiome remains in its infancy. In this review, we aim to explore the mechanisms that govern the phyllosphere assembly and their function in host defence, as well as highlight the knowledge gaps. These efforts will help develop strategies to harness the phyllosphere microbiome toward sustainable crop production.
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Affiliation(s)
| | - Junhyun Jeon
- Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Republic of Korea;
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4
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Gong G, Hong Y, Wang X, De Mandal S, Zafar J, Huang L, Jin F, Xu X. Nicotine perturbs the microbiota of brown planthopper (Nilaparvata lugens stål Hemiptera: Delphinidae). Ecotoxicol Environ Saf 2023; 264:115383. [PMID: 37634480 DOI: 10.1016/j.ecoenv.2023.115383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 08/08/2023] [Accepted: 08/16/2023] [Indexed: 08/29/2023]
Abstract
Bacterial symbionts exhibiting co-evolutionary patterns with insect hosts play a vital role in the nutrient synthesis, metabolism, development, reproduction, and immunity of insects. The brown planthopper (BPH) has a strong ability to adapt to various environmental stresses and can develop resistance to broad-spectrum insecticides. We aimed to investigate whether gut symbionts of BPH play a major role in the detoxification of insecticides and host fitness in unfavorable environments. Nicotine-treated rice plants were exposed to BPH (early stage) and the gut microbiome of the emerging female adults were analyzed using high throughput sequencing (HTS). Nicotine administration altered the diversity and community structure of BPH symbionts with significant increases in bacterial members such as Microbacteriaceae, Comamondaceae, Enterobacteriaceae, and these changes may be associated with host survival strategies in adverse environments. Furthermore, the in-vitro study showed that four intestinal bacterial strains of BPH (Enterobacter NLB1, Bacillus cereus NL1, Ralstonia NLG26, and Delftia NLG11) could degrade nicotine when grown in a nicotine-containing medium, with the highest degradation (71%) observed in Delftia NLG11. RT-qPCR and ELISA analysis revealed an increased expression level of CYP6AY1 and P450 enzyme activities in Delftia NLG11, respectively. CYP6AY1 increased by 20% under the action of Delftia and nicotine, while P450 enzyme activity increased by 18.1%. After CYP6AY1 interference, nicotine tolerance decreased, and the mortality rate reached 76.65% on the first day and 100% on the third day. Moreover, Delftia NLG11 helped axenic BPHs to increase their survival rate when fed nicotine in the liquid-diet sac (LDS) feeding system. Compared with axenic BPHs, the survival rate improved by 25.11% on day 2% and 6.67% on day 3. These results revealed an altered gut microbiota and a cooperative relationship between Delftia NLG11 and CYP6AY1 in nicotine-treated BPH, suggesting that insects can adapt to a hostile environment by interacting with their symbionts and providing a new idea for integrated pest management strategies.
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Affiliation(s)
- Gu Gong
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Yingying Hong
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Xuemei Wang
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Surajit De Mandal
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Junaid Zafar
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Ling Huang
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China
| | - Fengliang Jin
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China.
| | - Xiaoxia Xu
- National Key Laboratory of Green Pesticide, College of Plant Protection, South China Agricultural University, Guangzhou, PR China.
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Wu H, Xu Y, Zafar J, Mandal SD, Lin L, Lu Y, Jin F, Pang R, Xu X. Transcriptomic Analysis Reveals the Impact of the Biopesticide Metarhizium anisopliae on the Immune System of Major Workers in Solenopsis invicta. Insects 2023; 14:701. [PMID: 37623411 PMCID: PMC10455567 DOI: 10.3390/insects14080701] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Revised: 08/06/2023] [Accepted: 08/08/2023] [Indexed: 08/26/2023]
Abstract
The red imported fire ant (Solenopsis invicta Buren, 1972) is a globally significant invasive species, causing extensive agricultural, human health, and biodiversity damage amounting to billions of dollars worldwide. The pathogenic fungus Metarhizium anisopliae (Metchnikoff) Sorokin (1883), widely distributed in natural environments, has been used to control S. invicta populations. However, the interaction between M. anisopliae and the immune system of the social insect S. invicta remains poorly understood. In this study, we employed RNA-seq to investigate the effects of M. anisopliae on the immune systems of S. invicta at different time points (0, 6, 24, and 48 h). A total of 1313 differentially expressed genes (DEGs) were identified and classified into 12 expression profiles using short time-series expression miner (STEM) for analysis. Weighted gene co-expression network analysis (WGCNA) was employed to partition all genes into 21 gene modules. Upon analyzing the statistically significant WGCNA model and conducting Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis on the modules, we identified key immune pathways, including the Toll and Imd signaling pathways, lysosomes, autophagy, and phagosomes, which may collectively contribute to S. invicta defense against M. anisopliae infection. Subsequently, we conducted a comprehensive scan of all differentially expressed genes and identified 33 immune-related genes, encompassing various aspects such as recognition, signal transduction, and effector gene expression. Furthermore, by integrating the significant gene modules derived from the WGCNA analysis, we constructed illustrative pathway diagrams depicting the Toll and Imd signaling pathways. Overall, our research findings demonstrated that M. anisopliae suppressed the immune response of S. invicta during the early stages while stimulating its immune response at later stages, making it a potential biopesticide for controlling S. invicta populations. These discoveries lay the foundation for further understanding the immune mechanisms of S. invicta and the molecular mechanisms underlying its response to M. anisopliae.
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Affiliation(s)
| | | | | | | | | | | | | | - Rui Pang
- National Key Laboratory of Green Pesticide, “Belt and Road” Technology Industry and Innovation Institute for Green and Biological Control of Agricultural Pests, College of Plant Protection, South China Agricultural University, Guangzhou 510642, China; (H.W.); (Y.X.); (J.Z.); (S.D.M.); (L.L.); (Y.L.); (F.J.)
| | - Xiaoxia Xu
- National Key Laboratory of Green Pesticide, “Belt and Road” Technology Industry and Innovation Institute for Green and Biological Control of Agricultural Pests, College of Plant Protection, South China Agricultural University, Guangzhou 510642, China; (H.W.); (Y.X.); (J.Z.); (S.D.M.); (L.L.); (Y.L.); (F.J.)
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Abstract
The nuclear import of proteins is a fundamental process in the eukaryotes including plant. It has become evident that such basic process is exploited by nuclear effectors that contain nuclear localization signal (NLS) and are secreted into host cells by fungal pathogens of plants. However, only a handful of nuclear effectors have been known and characterized to date. Here, we first summarize the types of NLSs and prediction tools available, and then delineate examples of fungal nuclear effectors and their roles in pathogenesis. Based on the knowledge on NLSs and what has been gleaned from the known nuclear effectors, we point out the gaps in our understanding of fungal nuclear effectors that need to be filled in the future researches.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, College of Life and Applied Sciences, Yeungnam University, Gyeongsan, Korea
| | - Junhyun Jeon
- Department of Biotechnology, College of Life and Applied Sciences, Yeungnam University, Gyeongsan, Korea
- Plant Immunity Research Center, Seoul National University, Seoul, Korea
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Dixit S, Gaur M, Subudhi E, Sahoo RK, Dey S, Mahapatra LD, Mandal SD, Senthil Kumar N, Anirudh H. Bacterial Diversity and CAZyme Potential Revealed in Pandanus Rich Thermal Spring Cluster of India: A Non-cultivable 16S rRNA Sequencing Approach. Front Microbiol 2021; 12:760573. [PMID: 34899644 PMCID: PMC8656282 DOI: 10.3389/fmicb.2021.760573] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 10/11/2021] [Indexed: 11/13/2022] Open
Abstract
In the present study, we explored four different geothermal spots of the Deulajhari spring cluster at a proximity of 10-20 meters with temperatures of 43 to 65°C to unravel their genesis, bacterial diversity and CAZyme potential. However, minor variations in physicochemical properties; TOC, sodium, chloride, zinc and nitrate were observed, including the pH of the spring openings. Illumina based amplicon sequencing revealed Firmicutes, Proteobacteria and Chloroflexi as the major bacterial phylum with higher abundance in the DJ04 sample. The alpha diversity of all the springs was almost same, whereas beta diversity revealed variations in the degree of uniqueness of OTUs at different temperatures. Statistical analysis established a positive correlation between sulfur content with Heliobacterium, Thermodesulfovibrio, Thermodesulfobacterium and Herpetosipho as well as TOC and HCO3 with Thermoanaerobacter, Desulfovibrio, Candidatus solibacter and Dehalogenimona. The major hydrocarbon family genes and Carbohydrate Active Enzyme pathways were predicted to be highest in DJ04 with elevated concentrations of HCO3 and TOC. Higher homogeneity in geo-physicochemical and microbial features direct the possibility of the common origin of these springs through plumbing systems. However, the minor variations in diversity and functionality were due to variations in temperature in spring openings through the mixing of subsurface water contaminated with carbohydrates from leaf biomass litter. Functional characterization of the thermophilic bacteria of this spring provides essential scope for further industrial applications. The biogeochemical reasons hypothesized for the genesis of unique multiple openings in the cluster are also of interest to conservation scientists for taking measures toward necessary laws and regulations to protect and preserve these springs.
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Affiliation(s)
- Sangita Dixit
- Center for Biotechnology, School of Pharmaceutical Sciences, Siksha 'O' Anusandhan (Deemed to Be University), Bhubaneswar, India
| | - Mahendra Gaur
- Center for Biotechnology, School of Pharmaceutical Sciences, Siksha 'O' Anusandhan (Deemed to Be University), Bhubaneswar, India
| | - Enketeswara Subudhi
- Center for Biotechnology, School of Pharmaceutical Sciences, Siksha 'O' Anusandhan (Deemed to Be University), Bhubaneswar, India
| | - Rajesh Kumar Sahoo
- Center for Biotechnology, School of Pharmaceutical Sciences, Siksha 'O' Anusandhan (Deemed to Be University), Bhubaneswar, India
| | - Suchanda Dey
- Center for Biotechnology, School of Pharmaceutical Sciences, Siksha 'O' Anusandhan (Deemed to Be University), Bhubaneswar, India
| | - Lakshmi Datta Mahapatra
- Deputy Director Geology, Panchayati Raj and Drinking Water Department (Government of Odisha), Bhubaneswar, India
| | - Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | | | - Hardik Anirudh
- Department of Electronics and Communication, Dayananda Sagar College of Engineering, Bengaluru, India
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De Mandal S, Panda AK, Murugan C, Xu X, Senthil Kumar N, Jin F. Antimicrobial Peptides: Novel Source and Biological Function With a Special Focus on Entomopathogenic Nematode/Bacterium Symbiotic Complex. Front Microbiol 2021; 12:555022. [PMID: 34335484 PMCID: PMC8318700 DOI: 10.3389/fmicb.2021.555022] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 06/14/2021] [Indexed: 01/05/2023] Open
Abstract
The rapid emergence of multidrug resistant microorganisms has become one of the most critical threats to public health. A decrease in the effectiveness of available antibiotics has led to the failure of infection control, resulting in a high risk of death. Among several alternatives, antimicrobial peptides (AMPs) serve as potential alternatives to antibiotics to resolve the emergence and spread of multidrug-resistant pathogens. These small proteins exhibit potent antimicrobial activity and are also an essential component of the immune system. Although several AMPs have been reported and characterized, studies associated with their potential medical applications are limited. This review highlights the novel sources of AMPs with high antimicrobial activities, including the entomopathogenic nematode/bacterium (EPN/EPB) symbiotic complex. Additionally, the AMPs derived from insects, nematodes, and marine organisms and the design of peptidomimetic antimicrobial agents that can complement the defects of therapeutic peptides have been used as a template.
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Affiliation(s)
- Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | | | - Chandran Murugan
- SRM Research Institute, SRM Institute of Science and Technology, Kattankulathur, India
| | - Xiaoxia Xu
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | | | - Fengliang Jin
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
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Govindarajan RK, Khanongnuch C, Mathivanan K, Shyu DJH, Sharma KP, De Mandal S. In-vitro biotransformation of tea using tannase produced by Enterobacter cloacae 41. J Food Sci Technol 2021; 58:3235-3242. [PMID: 34294986 DOI: 10.1007/s13197-021-05018-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Revised: 01/29/2021] [Accepted: 01/31/2021] [Indexed: 11/24/2022]
Abstract
Tannase is a widely used enzyme that improves the quality of tea by facilitating the release of water-soluble polyphenolic compounds, as well as reduces the formation of tea creams. The microbial tannase enzymes are often employed for tea biotransformation by hydrolyses esters of phenolic acids, including the gallated polyphenols found in blacks teas. The study was focused to investigate the tannase enzyme mediated biotransformation of black tea such as CTC-(Crush, tear, curl) & Kangra orthodox which are commonly used by the south Indian peoples. HPLC spectral analysis revealed that tannase treatment on tea cream formation (CTC & Kangra orthodox tea) allows the hydrolysis of the EGC, GA, ECG, and EGCG. A significant reduction in the formation of tea cream and increased antioxidant activity has been observed in the CTC (1.62 fold) and Kangra orthodox (1.55 fold). The results revealed that tannase treatment helps to improve the quality of black tea infusions with respect to cream formation, the intensity of colour, and sensory characteristics of tea. The result of this study indicates that E. cloacae 41 produced tannase can be used to improve the quality of both tea samples.
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Affiliation(s)
- Rasiravathanahalli Kaveriyappan Govindarajan
- Guangdong Province, Key Laboratory of Microbial Signals and Disease Control and Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, 510642 People's Republic of China.,Division of Biotechnology, School of Agro-Industry, Faculty of Agro-Industry, Chiang Mai University, Chiang Mai, 50100 Thailand
| | - Chartchai Khanongnuch
- Division of Biotechnology, School of Agro-Industry, Faculty of Agro-Industry, Chiang Mai University, Chiang Mai, 50100 Thailand
| | - Krishnamurthy Mathivanan
- School of Mineral Processing and Bioengineering, Central South University, Changsha, 410083 People's Republic of China
| | - Douglas J H Shyu
- Functional Genomics Laboratory, Department of Biological Science and Technology, National Pingtung University of Science and Technology, Neipu, Pingtung 91201 Taiwan
| | - Kanti Prakash Sharma
- Department of Biosciences, Mody University of Science and Technology, Lakshmangah, Sikar, Rajasthan 332311 India
| | - Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, 510642 People's Republic of China
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Li S, Xu X, De Mandal S, Shakeel M, Hua Y, Shoukat RF, Fu D, Jin F. Gut microbiota mediate Plutella xylostella susceptibility to Bt Cry1Ac protoxin is associated with host immune response. Environ Pollut 2021; 271:116271. [PMID: 33401210 DOI: 10.1016/j.envpol.2020.116271] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Revised: 11/27/2020] [Accepted: 12/08/2020] [Indexed: 06/12/2023]
Abstract
Insect gut microbiotas have a variety of physiological functions for host growth, development, and immunity. Bacillus thuringiensis (Bt) is known to kill insect pests by releasing insecticidal protoxins, which are activated in the insect midgut. However, the interplay among Bt infection, host immunity, and gut microbiota are still unclear. Here we show that Bt Cry1Ac protoxin interacts with the gut microbiota to accelerate the mortality of P. xylostella larvae. Cry1Ac protoxin was found to cause a dynamic change in the midgut and hemocoel microbiota of P. xylostella, with a significant increase in bacterial load and a significant reduction in bacterial diversity. In turn, loss of gut microbiota significantly decreased the Bt susceptibility of P. xylostella larvae. The introduction of three gut bacterial isolates Enterococcus mundtii (PxG1), Carnobacterium maltaromaticum (PxCG2), and Acinetobacter guillouiae (PxCG3) restored sensitivity to Bt Cry1Ac protoxin. We also found that Cry1Ac protoxin and native gut microbiota can trigger host midgut immune response, which involves the up-regulation of expression of Toll and IMD pathway genes and most antimicrobial peptide genes, respectively. Our findings further shed light on the interplay between insect gut microbiota and host immunity under the Bt toxin killing pressure, and this may provide insights for improving the management of Bt resistance and lead to new strategies for biological control of insect pests.
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Affiliation(s)
- Shuzhong Li
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Xiaoxia Xu
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Surajit De Mandal
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Muhammad Shakeel
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Yanyan Hua
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Rana Fartab Shoukat
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Dongran Fu
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China
| | - Fengliang Jin
- College of Plant Protection, South China Agricultural University, Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, PR China.
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Mishra R, Panda AK, De Mandal S, Shakeel M, Bisht SS, Khan J. Natural Anti-biofilm Agents: Strategies to Control Biofilm-Forming Pathogens. Front Microbiol 2020; 11:566325. [PMID: 33193155 PMCID: PMC7658412 DOI: 10.3389/fmicb.2020.566325] [Citation(s) in RCA: 147] [Impact Index Per Article: 36.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Accepted: 09/30/2020] [Indexed: 12/16/2022] Open
Abstract
Pathogenic microorganisms and their chronic pathogenicity are significant concerns in biomedical research. Biofilm-linked persistent infections are not easy to treat due to resident multidrug-resistant microbes. Low efficiency of various treatments and in vivo toxicity of available antibiotics drive the researchers toward the discovery of many effective natural anti-biofilm agents. Natural extracts and natural product-based anti-biofilm agents are more efficient than the chemically synthesized counterparts with lesser side effects. The present review primarily focuses on various natural anti-biofilm agents, i.e., phytochemicals, biosurfactants, antimicrobial peptides, and microbial enzymes along with their sources, mechanism of action via interfering in the quorum-sensing pathways, disruption of extracellular polymeric substance, adhesion mechanism, and their inhibitory concentrations existing in literature so far. This study provides a better understanding that a particular natural anti-biofilm molecule exhibits a different mode of actions and biofilm inhibitory activity against more than one pathogenic species. This information can be exploited further to improve the therapeutic strategy by a combination of more than one natural anti-biofilm compounds from diverse sources.
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Affiliation(s)
- Rojita Mishra
- Department of Botany, Polasara Science College, Polasara, India
| | | | - Surajit De Mandal
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Muhammad Shakeel
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | | | - Junaid Khan
- Department of Pharmacy, Sant Gahira Guru University, Ambikapur, India
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12
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Wang C, Jin F, De Mandal S, Zeng L, Zhang Y, Hua Y, Hong Y, Zhao C, Li J, Li D, Xu X. Insights into the venom protein components of the egg parasitoid Anastatus japonicus (Hymenoptera: Eupelmidae). Pest Manag Sci 2020; 76:2113-2126. [PMID: 31951096 DOI: 10.1002/ps.5750] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2019] [Revised: 01/08/2020] [Accepted: 01/17/2020] [Indexed: 06/10/2023]
Abstract
BACKGROUND Parasitoid venom is composed of a complex mixture of various active substances with different biological functions and is injected in the host during the parasitoid oviposition. Anastatus japonicus (Hymenoptera: Eupelmidae) is an egg parasite of Tessaratoma papillosa (Hemiptera: Tessaratomidae). Although the venom of this egg parasitoid plays an important role in the parasitic process, relatively little work has been done to address the mechanism. RESULTS In the present study, proteomic analysis was performed to identify the proteins that play an important role in the parasitic process of A. japonicus. A total of 2084 proteins were identified, including 81 putative venom proteins, most of which were identified as Hexamerin, Chitinase 2, Calreticulin, Heat shock protein 83-like, Serine protease, Arginine kinase, Phosphoserine aminotransferase and Actin protein. Together the before (Be) and after (Af) parasitization venom contains 1628 proteins, including 212 DEPs with 181 and 31 significantly up-regulated and down-regulated respectively. In addition, 10 differentially expressed proteins (DEPs) with fold change ≥8.71 were subjected to RT-qPCR to validate the proteomic data. The differential expression analysis revealed that nine proteins were specifically present in the pre-parasitic venom, whereas 26 proteins were specific to the post-parasitic treatments. Results of RT-qPCR analysis showed high expression of the selected DEPs which further validated our proteomics data. CONCLUSION These new proteomic data greatly enrich our current knowledge about key venom proteins associated with parasitic process in A. japonicus and contribute to better understanding of the parasitic mechanisms leading to the development of new biological control strategies. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Chengxing Wang
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
- Plant Protection Research Institute, , Guangdong Academy of Agricultural Sciences/Guangdong Provincial Key Laboratory of High Technology for Plant Protection, Guangzhou 510640, China
| | - Fengliang Jin
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Lu Zeng
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Yuxin Zhang
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Yanyan Hua
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Yingying Hong
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Can Zhao
- Plant Protection Research Institute, , Guangdong Academy of Agricultural Sciences/Guangdong Provincial Key Laboratory of High Technology for Plant Protection, Guangzhou 510640, China
| | - Junzhai Li
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
- Plant Protection Research Institute, , Guangdong Academy of Agricultural Sciences/Guangdong Provincial Key Laboratory of High Technology for Plant Protection, Guangzhou 510640, China
| | - Dunsong Li
- Plant Protection Research Institute, , Guangdong Academy of Agricultural Sciences/Guangdong Provincial Key Laboratory of High Technology for Plant Protection, Guangzhou 510640, China
| | - Xiaoxia Xu
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
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De Mandal S, Lin B, Shi M, Li Y, Xu X, Jin F. iTRAQ-Based Comparative Proteomic Analysis of Larval Midgut From the Beet Armyworm, Spodoptera exigua (Hübner) (Lepidoptera: Noctuidae) Challenged With the Entomopathogenic Bacteria Serratia marcescens. Front Physiol 2020; 11:442. [PMID: 32457652 PMCID: PMC7227483 DOI: 10.3389/fphys.2020.00442] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2020] [Accepted: 04/08/2020] [Indexed: 12/21/2022] Open
Abstract
Entomopathogenic bacteria Serratia marcescens is widely used as an environmentally friendly biocontrol agent against various pests, including Spodoptera exigua. Understanding the immune defense mechanism of S. exigua through comparative proteomic analysis can identify the key proteins expressed in response to the microbial infection. Here, we employed the as isobaric tags for relative and absolute quantification (iTRAQ) technique to investigate the effects of S. marcescens on the proteomic expression of S. exigua. Based on the molecular functional analysis, the differentially expressed proteins (DEPs) were mainly involved in the binding process and catalytic activities. Further bioinformatics analysis revealed important DEPs that played a crucial role in innate immunity of S. exigua with recognition (C-type lectin), melanization (propanol oxidase 3, serine protease, Serine-type carboxypeptidase activity, clip domain serine protease 4), antimicrobial activity (lysozyme, lysozyme-like, gloverin, cecropin B), detoxification (acetyl-CoA C-acetyltransferase, 3-dehydroecdysone 3-alpha-reductase, glucuronosyltransferase, glutathione S-transferase) and others. The Quantitative real-time PCR (qRT-PCR) results further indicated the significant upregulation of the immune-related genes in Spodoptera exigua following S. marcescens infection. To the best of our knowledge, this is the first iTRAQ based study to characterize S. marcescens mediated proteomic changes in S. exigua and identified important immune-related DEPs. The results of this study will provide an essential resource for understanding the host-pathogen interactions and the development of novel microbial biopesticides against various pests.
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Affiliation(s)
| | | | | | | | - Xiaoxia Xu
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Fengliang Jin
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
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14
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Karthi S, Vinothkumar M, Karthic U, Manigandan V, Saravanan R, Vasantha-Srinivasan P, Kamaraj C, Shivakumar MS, De Mandal S, Velusamy A, Krutmuang P, Senthil-Nathan S. Biological effects of Avicennia marina (Forssk.) vierh. extracts on physiological, biochemical, and antimicrobial activities against three challenging mosquito vectors and microbial pathogens. Environ Sci Pollut Res Int 2020; 27:15174-15187. [PMID: 32072409 DOI: 10.1007/s11356-020-08055-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Accepted: 02/10/2020] [Indexed: 06/10/2023]
Abstract
Mosquitoes are principal vector of several vector-borne diseases affecting human beings leading to thousands of deaths per year and responsible for transmitting diseases like malaria, dengue, chikungunya, yellow fever, Zika virus, Japanese encephalitis, and lymphatic filariasis. In the present study, we evaluated the different solvent extracts of mangrove Avicennia marina for their toxicity against larvae of three major mosquito vectors, as well as selected microbial pathogens. The larvicidal mortality of third instars was observed after 24 h. Highest larval mortality was found for the acetone extract of A. marina against Culex quinquefasciatus (LC50 = 0.197 mg/ml; LC90 = 1.5011 mg/ml), Anopheles stephensi (LC50 = 0.176 mg/ml; LC90 = 3.6290 mg/ml), and Aedes aegypti (LC50 = 0.164 mg/ml; LC90 = 4.3554 mg/ml). GC-MS analysis of acetone extract revealed 5 peaks, i.e., 1-hexyl-2-nitrocyclohexane (3.229%), eicosanoic acid (40.582%), cis-9-hexadecenal (70.54%), oleic acid (4.646%), and di-N-decylsulfone (5.136%). Parallel to larvicidal assay, sub-lethal dosage acetone extracts severely affected the enzyme regulations (α,β-carboxylesterase, GST and CYP450) of third instars. Larval and pupal durations increased in all treatment sub-lethal dosage (0.127, 0.151, 0.177, and 0.197 mg/ml), whereas egg hatchability and means of fecundity decreased compared to control. The survival rate was reduced statistically in Cx. quinquefasciatus (χ2 = 23.77, df = 1, P = 0.001) in all the treatment dosages as compared to the control. Antimicrobial activity assays showed significant growth inhibition post treatment with acetone and methanol extracts against Salmonella typhimurium, Klebsiella pneumoniae, Pseudomonas aeruginosa, Staphylococcus pneumoniae, Escherichia coli, and Shigella flexneri. Overall, these results indicated the potential employment of A. marina extracts as a source of natural mosquitocidal and antimicrobial compounds of green-based environment.
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Affiliation(s)
- Sengodan Karthi
- Department of Biochemistry, K.S. Rangasamy College of Arts and Science (Autonomous), Tiruchengode, Namakkal, Tamil Nadu, 637215, India.
- Division of Biopesticides and Environmental Toxicology, Sri Paramakalyani Centre for Excellence in Environmental Sciences, Manonmaniam Sundaranar University, Alwarkurichi, Tirunelveli, Tamil Nadu, 627412, India.
| | - Manohar Vinothkumar
- Department of Biochemistry, K.S. Rangasamy College of Arts and Science (Autonomous), Tiruchengode, Namakkal, Tamil Nadu, 637215, India
| | - Uthirarajan Karthic
- Department of Biochemistry, K.S. Rangasamy College of Arts and Science (Autonomous), Tiruchengode, Namakkal, Tamil Nadu, 637215, India
| | - Venkatesan Manigandan
- Department of Medical Biotechnology, Chettinad Academy of Research and Education, Kelambakkam, Chennai, Tamil Nadu, India
| | - Ramachandran Saravanan
- Department of Medical Biotechnology, Chettinad Academy of Research and Education, Kelambakkam, Chennai, Tamil Nadu, India
| | - Prabhakaran Vasantha-Srinivasan
- Department of Biotechnology, St. Peter's Institute of Higher Education and Research, Avadi, Chennai, Tamil Nadu, 600054, India
| | | | | | - Surajit De Mandal
- College of Agriculture, South China Agricultural University, Guangzhou, 510642, China
| | - Arumugam Velusamy
- Department of Environmental Biotechnology, Bharathidasan University, Trichy, Tamil Nadu, 620024, India
| | - Patcharin Krutmuang
- Department of Entomology and Plant Pathology, Faculty of Agriculture, Chiang Mai, University, Muang, Chiang Mai, 50200, Thailand.
| | - Sengottayan Senthil-Nathan
- Division of Biopesticides and Environmental Toxicology, Sri Paramakalyani Centre for Excellence in Environmental Sciences, Manonmaniam Sundaranar University, Alwarkurichi, Tirunelveli, Tamil Nadu, 627412, India.
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15
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Manpoong C, De Mandal S, Bangaruswamy DK, Perumal RC, Benny J, Beena P, Ghosh A, Kumar NS, Tripathi SK. Linking rhizosphere soil biochemical and microbial community characteristics across different land use systems in mountainous region in Northeast India. Meta Gene 2020. [DOI: 10.1016/j.mgene.2019.100625] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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16
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De Mandal S, Mazumder TH, Panda AK, Kumar NS, Jin F. Analysis of synonymous codon usage patterns of HPRT1 gene across twelve mammalian species. Genomics 2020; 112:304-311. [DOI: 10.1016/j.ygeno.2019.02.010] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2018] [Revised: 02/05/2019] [Accepted: 02/14/2019] [Indexed: 01/01/2023]
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17
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De Mandal S, Mathipi V, Muthukumaran RB, Gurusubramanian G, Lalnunmawii E, Kumar NS. Amplicon sequencing and imputed metagenomic analysis of waste soil and sediment microbiome reveals unique bacterial communities and their functional attributes. Environ Monit Assess 2019; 191:778. [PMID: 31784843 DOI: 10.1007/s10661-019-7879-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2019] [Accepted: 10/10/2019] [Indexed: 06/10/2023]
Abstract
The discharge of solid and liquid waste from domestic, municipal, and hospital premises pollutes the soil and river ecosystems. However, the diversity and functions of the microbial communities present in these polluted environments are not well understood and may contain harmful microbial communities with specialized metabolic potential. In this present study, we adapted the Illumina sequencing technology to analyze microbial communities and their metabolic capabilities in polluted environments. A total of 1113884 sequences of v3-v4 hypervariable region of the 16S rRNA were obtained using Illumina sequencing and assigned to the corresponding taxonomical ranks using Greengenes databases. Proteobacteria and Bacteroidetes were dominantly present in all the four studied sites (solid waste dumping site (SWD); Chite river site (CHR), Turial river site (TUR), and Tuikual river site (TUKR)). It was found that the SWD was dominated by Firmicutes, Actinobacteria; CHR by Acidobacteria, Verrucomicrobia, Planctomycetes; TUR by Verrucomicrobia, Acidobacteria; and TUKR by Verrucomicrobia and Firmicutes, respectively. The dominant bacterial genus present in all samples was Acinetobacter, Flavobacterium, Prevotella, Corynebacterium, Comamonas, Bacteroides, Wautersiella, Cloacibacterium, Stenotrophomonas, Sphingobacterium, and Pseudomonas. Twenty-seven putative bacterial pathogens were identified from the contaminated sites belonging to Salmonella enterica, Pseudomonas aeruginosa, Escherichia coli, and Staphylococcus aureus. Functional analysis showed a high representation of genes in the KEGG pathway involved in the metabolism of amino acids and carbohydrates and identified several genes associated with antibiotic resistance and xenobiotic degradation in these environments, which can be a serious problem for human health and environment. The results from this research will provide a new understanding of the possible management practices to minimize the spread of pathogenic microorganisms in the environment.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram, 796004, India
- College of Agriculture, South China Agricultural University, Guangzhou, China
| | | | | | | | - Esther Lalnunmawii
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram, 796004, India
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18
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De Mandal S, Shakeel M, Prabhakaran VS, Karthi S, Xu X, Jin F. Alternative splicing and insect ryanodine receptor. Arch Insect Biochem Physiol 2019; 102:e21590. [PMID: 31218747 DOI: 10.1002/arch.21590] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Revised: 04/20/2019] [Accepted: 05/22/2019] [Indexed: 06/09/2023]
Abstract
Phylogenetic tree of the ryanodine receptor (RyR) family based on maximum likelihood estimation.
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Affiliation(s)
- Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, Department of Entomology, South China Agricultural University, Guangzhou, People's Republic of China
| | - Muhammad Shakeel
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, Department of Entomology, South China Agricultural University, Guangzhou, People's Republic of China
| | | | - Sengodan Karthi
- Department of Environmental Sciences, Manonmaniam Sundaranar University, Tirunelveli, Tamilnadu, India
| | - Xiaoxia Xu
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, Department of Entomology, South China Agricultural University, Guangzhou, People's Republic of China
| | - Fengliang Jin
- Laboratory of Bio-Pesticide Creation and Application of Guangdong Province, College of Agriculture, Department of Entomology, South China Agricultural University, Guangzhou, People's Republic of China
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19
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Shakeel M, Xu X, De Mandal S, Jin F. Role of serine protease inhibitors in insect-host-pathogen interactions. Arch Insect Biochem Physiol 2019; 102:e21556. [PMID: 31050038 DOI: 10.1002/arch.21556] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Revised: 04/03/2019] [Accepted: 04/15/2019] [Indexed: 06/09/2023]
Abstract
Serine protease inhibitors (serpins), evolutionary old, structurally conserved molecules, are a superfamily of proteins found in almost all living organisms. Serpins are relatively large, typically 350-500 amino acids in length, with three β-sheets and seven to nine α-helices folding into a conserved tertiary structure with a reactive center loop. Serpins perform various physiological functions in insects, including development, digestion, host-pathogen interactions, and innate immune response. In insects, the innate immune system is characterized as the first and major defense system against the invasion of microorganisms. Serine protease cascades play a critical role in the initiation of innate immune responses, such as melanization and the production of antimicrobial peptides, and are strictly and precisely regulated by serpins. Herein, we provide a microreview on the role of serpins in the insect-host-pathogen interactions, emphasizing their role in immune responses, particularly in diamondback moth (Plutella xylostella), highlighting the important discoveries and also the gaps that remain to be explored in future studies.
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Affiliation(s)
- Muhammad Shakeel
- Laboratory of Bio-Pesticide Creation and Application, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Xiaoxia Xu
- Laboratory of Bio-Pesticide Creation and Application, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Surajit De Mandal
- Laboratory of Bio-Pesticide Creation and Application, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Fengliang Jin
- Laboratory of Bio-Pesticide Creation and Application, Department of Entomology, College of Agriculture, South China Agricultural University, Guangzhou, China
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20
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Xu X, Zhong A, Wang Y, Lin B, Li P, Ju W, Zhu X, Yu J, De Mandal S, Jin F. Molecular Identification of a Moricin Family Antimicrobial Peptide (Px-Mor) From Plutella xylostella With Activities Against the Opportunistic Human Pathogen Aureobasidium pullulans. Front Microbiol 2019; 10:2211. [PMID: 31681182 PMCID: PMC6797621 DOI: 10.3389/fmicb.2019.02211] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2019] [Accepted: 09/10/2019] [Indexed: 12/13/2022] Open
Abstract
Antimicrobial peptides (AMPs) represent the largest group of endogenous compounds and serves as a novel alternative to traditional antibiotics for the treatment of pathogenic microorganisms. Moricin is an important α-helical AMP plays a crucial role in insect humoral defense reactions. The present study was designed to identify and characterize novel AMP moricin (Px-Mor) from diamondback moth (Plutella xylostella) and tested its activity against bacterial and fungal infection including the opportunistic human pathogen Aureobasidium pullulans. Molecular cloning of Px-Mor using rapid amplification of cDNA ends revealed a 482 bp full length cDNA with 198 bp coding region. The deduced protein sequence contained 65 amino acids, and the mature peptides contained 42 amino acid residues with a molecular mass of 4.393 kDa. Expression analysis revealed that Px-Mor was expressed throughout the life cycle of P. xylostella with the highest level detectable in the fourth instar and prepupa stage. Tissue specific distribution showed that Px-Mor was highly expressed in fat body and hemocyte. In vitro, antimicrobial assays indicated that Px-Mor exhibited a broad antimicrobial spectrum against Gram positive bacteria (GPB), Gram negative bacteria (GNB) and fungi. Moreover, scanning electron microscopy and transmission electron microscopy (TEM) revealed that Px-Mor can cause obvious morphological alterations in A. pullulans, which demonstrated its powerful effect on the mycelia growth inhibition. Taken together, these results indicate that Px-Mor plays an important role in the immune responses of P. xylostella and can be further exploited as an antimicrobial agent against various diseases including for the treatment of A. pullulans infection.
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Affiliation(s)
- Xiaoxia Xu
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Anqiao Zhong
- Department of Respiratory Medicine, Yidu Central Hospital, Weifang, China
| | - Yansheng Wang
- State Key Laboratory of Respiratory Disease, Guangzhou Institute of Respiratory Disease, The First Affiliated Hospital of Guangzhou Medical College, Guangzhou, China
| | - Boda Lin
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Peng Li
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Wenyan Ju
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Xiaojia Zhu
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Jing Yu
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Surajit De Mandal
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Fengliang Jin
- Department of Entomology, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, China
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21
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Zhang Z, Kong J, De Mandal S, Li S, Zheng Z, Jin F, Xu X. An immune-responsive PGRP-S1 regulates the expression of antibacterial peptide genes in diamondback moth, Plutella xylostella (L.). Int J Biol Macromol 2019; 142:114-124. [PMID: 31593730 DOI: 10.1016/j.ijbiomac.2019.09.081] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2019] [Revised: 07/10/2019] [Accepted: 09/10/2019] [Indexed: 01/24/2023]
Abstract
Peptidoglycan recognition proteins (PGRPs) are family of pattern recognition receptors (PRRs) and triggers the innate immune system (IIS) against the microbial infection. Although PGRPs have been intensively studied in model insects, they remain uncharacterized in most of the non-model insects. Here, we cloned and characterized a full-length cDNA of PGRP, from P. xylostella (PxPGRP-S1), which encodes a protein of 239 amino acids with PGRP domain, Ami2 domain and transmembrane region. The phylogenetic analysis revealed that the PxPGRP-S1 was closely related to the unigene of Plutella xylostella. Quantitative real-time PCR and immunohistochemistry revealed that PxPGRP-S1 is mainly expressed in the fat body of the healthy larva. The expression of PxPGRP-S1 was significantly upregulated in the midgut at 24 h postinfection by Bacillus thuringiensis. Silencing of the PxPGRP-S1 expression by RNAi, significantly decrease the expression of the antimicrobial peptides (AMPs) in the 4th instar larvae of P. xylostella. Similarly injection of an anti-PxPGRP-S1 serum caused the low expression of the AMPs in P. xylostella. Additionally, PxPGRP-S1 depleted P. xylostella by oral administration of bacterial expressed dsRNA decreased the resistance against B. thuringiensis challenge, leads to high mortality. Together, our result indicates that PxPGRP-S1, served as a bacterial pattern recognition receptor (PRR) and triggers the expression of AMPs in P. xylostella.
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Affiliation(s)
- Zhantao Zhang
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Jinrong Kong
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Surajit De Mandal
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Shuzhong Li
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Zhihua Zheng
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Fengliang Jin
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China.
| | - Xiaoxia Xu
- Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou 510642, China.
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22
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Selvin J, Lanong S, Syiem D, De Mandal S, Kayang H, Kumar NS, Kiran GS. Culture-dependent and metagenomic analysis of lesser horseshoe bats' gut microbiome revealing unique bacterial diversity and signatures of potential human pathogens. Microb Pathog 2019; 137:103675. [PMID: 31473248 PMCID: PMC7127535 DOI: 10.1016/j.micpath.2019.103675] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2019] [Revised: 08/15/2019] [Accepted: 08/19/2019] [Indexed: 12/26/2022]
Abstract
Bats are highly diverse and ecologically important mammals. They harbor various bacteria, viruses, and fungal communities that are either beneficial or potentially pathogenic. Extensive metagenomic studies in bats are limited, particularly for the gut, and to date, there are no reports on the bacterial diversity of Rhinolophus monoceros from Meghalaya, India. There are limited studies on the isolation of potential harmful or beneficial bacteria and their interactions with the environment through culture-dependent approaches. Therefore, high-throughput screening was used to understand the population structure, genetic diversity, and ecological role of the microorganisms. High-throughput sequencing of the 16S rRNA marker for gene mapping showed that the gut samples constitute a diverse group of bacteria that is dominated by Proteobacteria, followed by Firmicutes. The bacterial genera Corynebacterium and Mycobacterium were also observed in the Illumina dataset. Illumina sequencing revealed eight bacterial phyla composed of 112 genera. The metagenomic analysis of the OTUs from the gut revealed diverse bacterial communities as well as zoonotic and human pathogens. There were differences in the bacterial communities between the two methods used in this study, which could be related to host specificity, diet, and habitat. The culture-dependent technique resulted in the isolation of 35 bacterial isolates, of which Bacillus cereus and B. anthracis are well-known bacterial pathogens that show virulent traits including hemolytic and proteolytic activities. Pseudomonas stutzeri is an opportunistic human pathogen that was also isolated and showed similar traits. Antibiotic sensitivity tests were performed on all 35 isolates, and different antibiotics were used for Gram-positive and -negative bacteria. The result showed that some isolates are resistant to antibiotics such as penicillin G and Cefoxitin. This report on gut bacterial communities could attract interest in the possibility of isolating and characterizing bacteria for the production of antibiotics, enzymes, plant growth promoters, and probiotics. However, the presence of potential pathogenic bacteria that may impose health hazards cannot be ignored and needs to be studied further.
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Affiliation(s)
- Joseph Selvin
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, 605014, India.
| | - Sheryl Lanong
- Department of Microbiology, School of Life Sciences, Pondicherry University, Puducherry, 605014, India
| | - Donkupar Syiem
- Department of Biochemistry, North Eastern Hill University, Shillong, 793022, India
| | - Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, 796004, India; College of Agriculture, South China Agricultural University, Key Laboratory of Bio-Pesticide Innovation and Application of Guangdong Province, Guangzhou, 510642, PR China
| | - Highland Kayang
- Department of Botany, North Eastern Hill University, Shillong, 793022, India
| | | | - G Seghal Kiran
- Department of Food science and Technology, Pondicherry University, Puducherry, 605014, India
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De Mandal S, Singh SS, Muthukumaran RB, Thanzami K, Kumar V, Kumar NS. Metagenomic analysis and the functional profiles of traditional fermented pork fat 'sa-um' of Northeast India. AMB Express 2018; 8:163. [PMID: 30298308 PMCID: PMC6175732 DOI: 10.1186/s13568-018-0695-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 10/03/2018] [Indexed: 02/01/2023] Open
Abstract
Fermented pork fat (sa-um) is traditionally and extensively consumed in Northeast Indian region for several decades. However, no scientific reports are available regarding its nutritional value as well as its potential health risks. The objective of this work was essentially the characterization of sa-um using a polyphasic approach, viz., physicochemical, electrospray ionization-mass spectrometry (ESI+-MS) and metagenomic analysis in order to gain an understanding of the nutrient contents and microbial population diversity. On a dry weight basis, about 91% fat, 2% carbohydrate and 0.70% protein were present. ESI+-MS analysis of sa-um revealed the presence of various polar and neutral lipids corresponding to monoacylglyceride, diacylglyceride and triacylglyceride species. The dominant bacterial phyla were Firmicutes, Proteobacteria and Bacteroidetes. A total of 72 bacterial genera were identified, largely abundant with Clostridium species including C. butyricum, C. citroniae, C. methylpentosum, C. perfringens, C. saccharogumia and C. tetani. The imputed functional profiles of bacterial communities were predominantly involved in energy, carbohydrate and amino acid metabolisms. Furthermore, this study deduces the presence of pro-inflammatory molecules as well as antibiotic resistance genes associated with the bacterial families such as Bacillaceae, Bacteroidaceae, Clostridiaceae, Corynebacteriaceae and Enterobacteriaceae which might be a major health concern for the sa-um consuming population.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram 796004 India
| | | | | | - Kawl Thanzami
- Dept of Pharmacy, Regional Institute of Paramedical and Nursing Sciences, Aizawl, Mizoram 796017 India
| | - Vinod Kumar
- Biotech Consortium India Ltd, Anuvrat Bhawan, Deen Dayal Upadhyaya Marg, New Delhi, 110002 India
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De Mandal S, Singh SS, Kumar NS. Analyzing plant growth promoting Bacillus sp. and related genera in Mizoram, Indo-Burma biodiversity Hotspot. Biocatalysis and Agricultural Biotechnology 2018. [DOI: 10.1016/j.bcab.2018.07.026] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Singh SS, De Mandal S, Mathipi V, Ghatak S, Kumar NS. Traditional fermented fish harbors bacteria with potent probiotic and anticancer properties. Biocatalysis and Agricultural Biotechnology 2018. [DOI: 10.1016/j.bcab.2018.07.007] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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Singh SS, De Mandal S, Lalnunmawii E, Senthil Kumar N. Antimicrobial, antioxidant and probiotics characterization of dominant bacterial isolates from traditional fermented fish of Manipur, North-East India. J Food Sci Technol 2018; 55:1870-1879. [PMID: 29666540 DOI: 10.1007/s13197-018-3103-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Revised: 02/22/2018] [Accepted: 03/02/2018] [Indexed: 10/17/2022]
Abstract
Utonga-kupsu, Hentak and Ngari are traditional fermented fish products produced by the Manipuri people living in the North-Eastern part of India. The present study was designed with the aim to isolate, identify and characterize the microorganisms present in these fermented foods. Bacterial pure cultures were isolated using serially diluted samples and were further identified by conventional biochemical tests and Sanger sequencing of 16s rRNA gene. Results show that the number of bacterial count in Nutrient agar and Starch casein agar was 14-20 and 10-16 CFU/g, respectively. A total of 46 morphologically different bacterial strains were identified and assigned under the phylum Firmicutes. Identified bacterial strains belonged to the genus Bacillus and Staphylococcus and majority of the isolates were Bacillus subtilis and Staphylococcus nepalensis. Bacterial isolate HNS60 isolated from Hentak and identified as Bacillus subtilis was shown to possess high antimicrobial activity against Staphylococcus aureus, Escherichia coli and Pseudomonas aeruginosa. Most of the identified bacteria were shown to possess DPPH radical scavenging as well as phosphatase, amylase, protease and cellulose activities. The isolate HNS60 contain high antimicrobial, enzymatic and probiotics activity which might responsible for the possible health benefits of the fermented foods. Utonga-kupsu, Hentak and Ngari thus can be further exploited as a potential source of probiotics and natural antioxidants.
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Affiliation(s)
| | - Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram 796004 India
| | - Esther Lalnunmawii
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram 796004 India
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Laha RC, De Mandal S, Ralte L, Ralte L, Kumar NS, Gurusubramanian G, Satishkumar R, Mugasimangalam R, Kuravadi NA. Meta-barcoding in combination with palynological inference is a potent diagnostic marker for honey floral composition. AMB Express 2017; 7:132. [PMID: 28651381 PMCID: PMC5483214 DOI: 10.1186/s13568-017-0429-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 06/12/2017] [Indexed: 11/10/2022] Open
Abstract
Identification of floral samples present in honey is important in order to determine the medicinal value, enhance the production of honey as well as to conserve the honey bees. Traditional approaches for studying pollen samples are based on microscopic observation which is laborious, time intensive and requires specialized palynological knowledge. Present study compares two composite honey metagenome collected from 20 samples in Mizoram, Northeast India using three gene loci- rbcL, matK and ITS2 that was sequenced using a next-generation sequencing (NGS) platform (Illumina Miseq). Furthermore, a classical palynology study for all 20 samples was carried out to evaluate the NGS approach. NGS based approach and pollen microscopic studies were able to detect the most abundant floral components of honey. We investigated the plants that were frequently used by honey bees by examining the results obtained from both the techniques. Microscopic examination of pollens detected plants with a broad taxonomic range covering 26 families. NGS based multigene approach revealed diverse plant species, which was higher than in any other previously reported techniques using a single locus. Frequently found herbaceous species were from the family Poaceae, Myrtaceae, Fabaceae and Asteraceae. The future NGS based approach using multi-loci target, with the help of an improved and robust plant database, can be a potential replacement technique for tedious microscopic studies to identify the polleniferous plants.
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Affiliation(s)
- Rama Chandra Laha
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
| | - Surajit De Mandal
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
| | - Lalhmanghai Ralte
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
| | - Laldinfeli Ralte
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
| | - Nachimuthu Senthil Kumar
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
| | - Guruswami Gurusubramanian
- Departments of Botany, Biotechnology and Zoology, School of Life Sciences, Mizoram University, Aizawl, Mizoram 796004 India
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Laha RC, De Mandal S, Ralte L, Ralte L, Kumar NS, Gurusubramanian G, Satishkumar R, Mugasimangalam R, Kuravadi NA. Correction to: Meta-barcoding in combination with palynological inference is a potent diagnostic marker for honey floral composition. AMB Express 2017; 7:189. [PMID: 29022235 PMCID: PMC5636776 DOI: 10.1186/s13568-017-0489-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2017] [Accepted: 10/03/2017] [Indexed: 11/17/2022] Open
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Panda AK, Bisht SS, Kaushal BR, De Mandal S, Kumar NS, Basistha BC. Bacterial diversity analysis of Yumthang hot spring, North Sikkim, India by Illumina sequencing. Big Data Anal 2017. [DOI: 10.1186/s41044-017-0022-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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De Mandal S, Chatterjee R, Kumar NS. Dominant bacterial phyla in caves and their predicted functional roles in C and N cycle. BMC Microbiol 2017; 17:90. [PMID: 28399822 PMCID: PMC5387202 DOI: 10.1186/s12866-017-1002-x] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2017] [Accepted: 04/06/2017] [Indexed: 01/10/2023] Open
Abstract
BACKGROUND Bacteria present in cave often survive by modifying their metabolic pathway or other mechanism. Understanding these adopted bacteria and their survival strategy inside the cave is an important aspect of microbial ecology. Present study focuses on the bacterial community and geochemistry in five caves of Mizoram, Northeast India. The objective of this study was to explore the taxonomic composition and presumed functional diversity of cave sediment metagenomes using paired end Illumina sequencing using V3 region of 16S rRNA gene and bioinformatics pipeline. RESULTS Actinobacteria, Proteobacteria, Verrucomicrobia and Acidobacteria were the major phyla in all the five cave sediment samples. Among the five caves the highest diversity is found in Lamsialpuk with a Shannon index 12.5 and the lowest in Bukpuk (Shannon index 8.22). In addition, imputed metagenomic approach was used to predict the functional role of microbial community in biogeochemical cycling in the cave environments. Functional module showed high representation of genes involved in Amino Acid Metabolism in (20.9%) and Carbohydrate Metabolism (20.4%) in the KEGG pathways. Genes responsible for carbon degradation, carbon fixation, methane metabolism, nitrification, nitrate reduction and ammonia assimilation were also predicted in the present study. CONCLUSION The cave sediments of the biodiversity hotspot region possessing a oligotrophic environment harbours high phylogenetic diversity dominated by Actinobacteria and Proteobacteria. Among the geochemical factors, ferric oxide was correlated with increased microbial diversity. In-silico analysis detected genes involved in carbon, nitrogen, methane metabolism and complex metabolic pathways responsible for the survival of the bacterial community in nutrient limited cave environments. Present study with Paired end Illumina sequencing along with bioinformatics analysis revealed the essential ecological role of the cave bacterial communities. These results will be useful in documenting the biospeleology of this region and systematic understanding of bacterial communities in natural sediment environments as well.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram, 796004, India
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Panda AK, Bisht SS, De Mandal S, Kumar NS. Bacterial and archeal community composition in hot springs from Indo-Burma region, North-east India. AMB Express 2016; 6:111. [PMID: 27832517 PMCID: PMC5104702 DOI: 10.1186/s13568-016-0284-y] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 11/02/2016] [Indexed: 11/24/2022] Open
Abstract
Bacterial and archaeal diversity of two alkaline Indian hot springs, Jakrem (Meghalaya) and Yumthang (Sikkim), were studied. Thirteen major bacterial phyla were identified of which Firmicutes, Chloroflexi and Thermi were dominant in Jakrem and Proteobacteria in Yumthang. The dominant genera were Clostridium, Chloroflexus and Meiothermus at Jakrem (water temperature 46 °C, pH 9) and Thiobacillus, Sulfuritalea at Yumthang (water temperature 39 °C, pH 8) hot springs. The four Euryarchaeota taxa that were observed in both the hot springs were Methanoculleus, Methanosaeta, Methanosarcina and Methanocorposculum. Elstera litoralis, Thiovirga sp., Turneriella sp. were observed for the first time in association with hot springs along with Tepidibacter sp., Ignavibacterium sp., Teribacillus sp. and Dechloromonas sp. Individual bacterial phyla were found to be specifically correlated with certain physico-chemical factors such as temperature, dissolved SiO2, elemental S, total sulphide, calcium concentrations in hot spring water. Bacterial reads involved in sulfur cycle were identified in both16S rRNA gene library and sulfur metabolism may play key physiological functions in this hot spring. Members within Desulfobacterales and Thermodesulfovibrionaceae were identified and hypothesized their role in regulating sulfur cycle. The presence of many taxonomically unsolved sequences in the 16S rRNA gene tag datasets from these hot springs could be a sign of novel microbe richness in these less known hot water bodies of Northeastern India.
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Chhakchhuak L, De Mandal S, Sanga Z, Lalnunmawii E, Lalhruaitluanga H, Guruswami G, Sudalaimuthu N, Gopalakrishnan C, Mugasimangalam RC, Nachimuthu SK. The complete mitochondrial genome of the Indian honey bee, Apis cerena cerana (Hymenoptera: Apidae: Apinae). Mitochondrial DNA A DNA Mapp Seq Anal 2016; 27:4663-4664. [DOI: 10.3109/19401736.2015.1106492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
| | - Surajit De Mandal
- Department of Biotechnology, Mizoram University, Mizoram, India, Aizawl,
| | - Zothan Sanga
- Department of Biotechnology, Mizoram University, Mizoram, India, Aizawl,
| | - Esther Lalnunmawii
- Department of Biotechnology, Mizoram University, Mizoram, India, Aizawl,
| | - H. Lalhruaitluanga
- Department of Biotechnology, Mizoram University, Mizoram, India, Aizawl,
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De Mandal S, Panda AK, Bisht SS, Senthil Kumar N. MiSeq HV4 16S rRNA gene analysis of bacterial community composition among the cave sediments of Indo-Burma biodiversity hotspot. Environ Sci Pollut Res Int 2016; 23:12216-12226. [PMID: 26971799 DOI: 10.1007/s11356-016-6423-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2015] [Accepted: 03/03/2016] [Indexed: 06/05/2023]
Abstract
Caves in Mizoram, Northeast India, are potential hotspot diversity regions due to the historical significance of the formation of the Indo-Burman plateau and also because of their unexplored and unknown diversity. High-throughput paired end Illumina sequencing of the V4 region of 16S rRNA was performed to study the bacterial community of three caves situated in Champhai district of Mizoram, Northeast India. A total of 10,643 operational taxonomic units (OTUs) (based on 97 % cutoff) comprising of 21 major and 21 candidate phyla with a sequencing depth of 1,140,013 were found in this study. The overall taxonomic profile obtained by the RDP classifier and Greengenes OTU database revealed high diversity within the bacterial communities. Communities were dominated by Planctomycetes, Actinobacteria, Proteobacteria, Bacteroidetes, and Firmicutes, while members of Archaea were less varied and mostly comprising of Eukaryoarchea. Analysis revealed that Farpuk (CFP) cave sediment has low microbial diversity and is mainly dominated by Actinobacteria (80 % reads), whereas different bacterial communities were found in the caves of Murapuk (CMP) and Lamsialpuk (CLP). Analysis also revealed that a major portion of the identified OTUs was classified under rare biosphere. Importantly, all these caves recorded a high number of unclassified OTUs, which might represent new species. Further analysis with whole genome sequencing is needed to validate the unknown species as well as to determine their functional role.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, 796004, Mizoram, India
| | - Amrita Kumari Panda
- Department of Zoology, Kumaun University, Nainital, 263002, Uttarakhand, India
| | - Satpal Singh Bisht
- Department of Zoology, Kumaun University, Nainital, 263002, Uttarakhand, India
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Vanlalruati C, De Mandal S, Guruswami G, Nachimuthu SK. Illumina based whole mitochondrial genome of Junonia iphita reveals minor intraspecific variation. Genom Data 2015; 6:280-2. [PMID: 26697399 PMCID: PMC4664761 DOI: 10.1016/j.gdata.2015.10.016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/10/2015] [Revised: 10/20/2015] [Accepted: 10/21/2015] [Indexed: 11/27/2022]
Abstract
In the present study, the near complete mitochondrial genome (mitogenome) of Junonia iphita (Lepidoptera: Nymphalidae: Nymphalinae) was determined to be 14,892 bp. The gene order and orientation are identical to those in other butterfly species. The phylogenetic tree constructed from the whole mitogenomes using the 13 protein coding genes (PCGs) defines the genetic relatedness of the two J. iphita species collected from two different regions. All the Junonia species clustered together, and were further subdivided into clade one consisting of J. almana and J. orithya and clade two comprising of the two J. iphita which were collected from Indo and Indochinese subregions separated by river barrier. Comparison between the two J. iphita sequences revealed minor variations and Single Nucleotide Polymorphisms were identified at 51 sites amounting to 0.4% of the entire mitochondrial genome.
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Affiliation(s)
- Catherine Vanlalruati
- Departments of Biotechnology and Zoology, Mizoram University, Aizawl, Mizoram 796004, India
| | - Surajit De Mandal
- Departments of Biotechnology and Zoology, Mizoram University, Aizawl, Mizoram 796004, India
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De Mandal S, Zothansanga, Lalremsanga HT, Kumar NS. Bacterial diversity of Murlen National Park located in Indo-Burman Biodiversity hotspot region: A metagenomic approach. Genom Data 2015; 5:25-6. [PMID: 26484216 PMCID: PMC4583615 DOI: 10.1016/j.gdata.2015.04.025] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/15/2015] [Accepted: 04/28/2015] [Indexed: 11/29/2022]
Abstract
Paired end Illumina Mi-Seq sequencing of 16S rRNA gene amplicon was carried out to study the bacterial community in the soil of Murlen National Park located in Indo-Burman Biodiversity hotspot region. Metagenome consisted of 302,416 reads with 151.81 Mb data and G + C content of 56.48%. More than 85% sequence was having a Phred score >=Q30 and individual sequence length was 251 bp. Metagenome sequence data are available at NCBI under the Bioproject database with accession no. SRP057136. Community metagenomics revealed a total of 1802 species belonging to 29 different phyla dominated by Acidobacteria (39.45%), Proteobacteria (26.95%) and Planctomycetes (7.81%). Our data detected a wide group of bacterial community which will be useful in further isolating and characterizing the economic importance of bacteria from this region.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Zothansanga
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - H T Lalremsanga
- Department of Zoology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Nachimuthu Senthil Kumar
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India ; Department of Zoology, Mizoram University, Aizawl 796004, Mizoram, India
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Chhakchhuak L, De Mandal S, Gurusubramanian G, Sudalaimuthu N, Gopalakrishnan C, Mugasimangalam RC, Vanramliana, Senthil Kumar N. Complete mitochondrial genome of the Himalayan honey bee, Apis laboriosa. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3755-6. [DOI: 10.3109/19401736.2015.1079891] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
| | - Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl, Mizoram, India,
| | | | | | | | | | - Vanramliana
- Department of Zoology, Pachhunga University college, Aizawl, Mizoram, India
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Chhakchhuak L, De Mandal S, Gurusubramanian G, Nachimuthu SK. The near complete mitochondrial genome of the Giant honey bee, Apis dorsata (Hymenoptera: Apidae: Apinae) and its phylogenetic status. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3483-4. [PMID: 26186304 DOI: 10.3109/19401736.2015.1066359] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
In this report, we sequenced and characterized the near complete mitochondrial genome of Apis dorsata collected from Mizoram, India. For sequencing of the complete mitochondrial genome, Illumina NextSeq500 platform was used. The near complete mitochondrial genome was assembled to be 15 076 bplong and contains the same gene order as the other honey bees. The assembly contains 13 protein coding genes, 21 transfer RNA, 2 ribosomal RNA and a partial control (A + T-rich) region estimated to be 75 bp. This is the first near complete sequenced mitochondrial genome from the giant honeybee A. dorsata which will benefit future genomics studies for understanding the phylogenetic relationship within the bee family.
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Vanlalruati C, Mandal SD, Gurusubramanian G, Senthil Kumar N. Complete mitochondrial genome of Chocolate Pansy, Junonia iphita (Lepidoptera: Nymphalidae: Nymphalinae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2468-9. [PMID: 26075476 DOI: 10.3109/19401736.2015.1033701] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome of Junonia iphita was determined to be 15,433 bp in length, including 37 typical mitochondrial genes and an AT-rich region. All the protein coding genes (PCGs) are initiated by typical ATN codons, except cox1 gene that is by CGA codon. Eight genes use complete termination codon (TAA), whereas the cox1, cox2 and nad5 genes end with single T; nad4 and nad1 ends with stop codon TA. All the tRNA show secondary cloverleaf structures except trnS1 (AGN). The A + T rich region is 546 bp in length containing ATAGA motif followed by a 18 bp poly-T stretch, two microsatellite-like (TA)9 elements and 8 bp poly-A stretch immediately upstream of trnM gene.
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De Mandal S, Panda AK, Lalnunmawii E, Bisht SS, Kumar NS. Illumina-based analysis of bacterial community in Khuangcherapuk cave of Mizoram, Northeast India. Genom Data 2015; 5:13-4. [PMID: 26484212 PMCID: PMC4583610 DOI: 10.1016/j.gdata.2015.04.023] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/09/2015] [Accepted: 04/28/2015] [Indexed: 02/01/2023]
Abstract
Bacterial community of the Khuangcherapuk cave sediment was assessed by Illumina amplicon sequencing. The metagenome comprised of 533,120 raw reads with an average base quality (Phred score) 36.75 and G + C content is 57.61%. A total of 18 bacterial phyla were detected with following abundant genus — Mycobacterium (21.72%), Rhodococcus (7.09%), Alteromonas (1.42%), Holomonas (0.7%) and Salinisphaera (0.20%). Majority portion of the sequences (68%) is unclassified at the genus level indicating the possibilities for the presence of novel species in this cave. This study reports the cave bacterial diversity from the biodiversity hotspot region of Eastern Himalayas. Metagenome sequence data are available at NCBI under the Bioproject database with accession no. SRP056890.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Amrita Kumari Panda
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Esther Lalnunmawii
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Satpal Singh Bisht
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
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Panda AK, Bisht SS, Kumar NS, De Mandal S. Investigations on microbial diversity of Jakrem hot spring, Meghalaya, India using cultivation-independent approach. Genom Data 2015; 4:156-7. [PMID: 26484205 PMCID: PMC4535621 DOI: 10.1016/j.gdata.2015.04.016] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/09/2015] [Accepted: 04/12/2015] [Indexed: 02/01/2023]
Abstract
Jakrem hot water spring is located in the West Khasi Hill District of the state of Meghalaya, and is one of the most popular hot springs of the state. There is a populist belief among the inhabitants and people that the hot spring water has got curative properties against various skin ailments. This is the first report on V3 hyper-variable region of 16S rDNA metagenome sequence employing Illumina platform to profile the microbial community of this less known hot spring from Meghalaya, India. Metagenome comprised of 10, 74,120 raw sequences with a sequence length of 151 bp and 56.35% G + C content. Metagenome sequence information is now available at NCBI, SRA database accession no. SRP056897. A total of 8, 77, 364 pre-processed reads were clustered into 694 OTUs (operational taxonomical units) comprising of 14 bacterial phyla including unknown phylum demonstrating 49 families. Hot spring bacterial community is dominated by Firmicutes (61.60%), Chloroflexi (21.37%), Cyanobacteria (12.96%) and unclassified bacteria (1.2%) respectively.
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Affiliation(s)
- Amrita Kumari Panda
- Department of Zoology, Kumaun University, Nainital 263002, Uttarakhand, India
- Corresponding author.
| | - Satpal Singh Bisht
- Department of Zoology, Kumaun University, Nainital 263002, Uttarakhand, India
| | | | - Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
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De Mandal S, Zothansanga, Panda AK, Bisht SS, Senthil Kumar N. First report of bacterial community from a Bat Guano using Illumina next-generation sequencing. Genom Data 2015; 4:99-101. [PMID: 26484190 PMCID: PMC4535889 DOI: 10.1016/j.gdata.2015.04.001] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/20/2015] [Revised: 04/01/2015] [Accepted: 04/01/2015] [Indexed: 02/01/2023]
Abstract
V4 hypervariable region of 16S rDNA was analyzed for identifying the bacterial communities present in Bat Guano from the unexplored cave - Pnahkyndeng, Meghalaya, Northeast India. Metagenome comprised of 585,434 raw Illumina sequences with a 59.59% G+C content. A total of 416,490 preprocessed reads were clustered into 1282 OTUs (operational taxonomical units) comprising of 18 bacterial phyla. The taxonomic profile showed that the guano bacterial community is dominated by Chloroflexi, Actinobacteria and Crenarchaeota which account for 70.73% of all sequence reads and 43.83% of all OTUs. Metagenome sequence data are available at NCBI under the accession no. SRP051094. This study is the first to characterize Bat Guano bacterial community using next-generation sequencing approach.
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Affiliation(s)
- Surajit De Mandal
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | - Zothansanga
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
| | | | - Satpal Singh Bisht
- Department of Biotechnology, Mizoram University, Aizawl 796004, Mizoram, India
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