Host-Microbiome Interactions in Human Health and Disease, Genetics of Innate Immunity Genes, Population Genetics and Molecular Evolution.
Nath S, Sarkar M, Maddheshiya A, De D, Paul S, Dey S, Pal K, Roy SR, Ghosh A, Sengupta S, Paine SK, Biswas NK, Basu A, MUKHERJEE S* (2023) Upper respiratory tract microbiome profiles in SARS-CoV-2 Delta and Omicron infected patients exhibit variant specific patterns and robust prediction of disease groups. Microbiology Spectrum. https://doi.org/10.1128/spectrum.02368-23 [I.F. = 3.7]
Mukherjee, P., Paul, S., Dutta, T., Nath S, Ghosh B, Chatterjee D, Mukhopadhyay S, MUKHERJEE
S* (2023) Nasal MRSA carriage is a risk factor for development of
antibiotic resistance in diabetic foot ulcers and is significantly higher than
diabetic and non-diabetic individuals without foot ulcer. BMC Infect Dis 23, 729.
https://doi.org/10.1186/s12879-023-08673-3 [I.F.=3.4]
Nath, S., Kumari, N., Bandyopadhyay, D., Sinha, N., Majumder, P. P., Mitra, R., & MUKHERJEE, S* (2020) Dysbiotic Lesional Microbiome With Filaggrin Missense Variants Associate With Atopic Dermatitis in India. Front Cell Infect Microbiol. 10, 570423. https://doi.org/10.3389/fcimb.2020.570423 [I.F.: 4.6]
MUKHERJEE S*, Mitra R, Maitra A, Gupta S, Kumaran S, Chakrabortty A & Majumder PP. (2016) Sebum and Hydration Levels in Specific Regions of Human Face Significantly Predict the Nature and Diversity of Facial Skin Microbiome. Scientific Reports 6, 36062;doi 10.1038/srep36062. [I.F.: 3.8]
MUKHERJEE S*, Ganguli D and Majumder PP. (2014) Global Footprints of Purifying Selection on Toll-Like Receptor Genes Primarily Associated with Response to Bacterial Infections in Humans. Genome Biology and Evolution. 6:551–558. https://doi.org/10.1093/gbe/evu032 [I.F.: 3.2]
MUKHERJEE S, Sarkar-Roy N, Wagener DK, Majumder PP. (2009) Signatures of natural selection are not uniform across genes of innate immune system, but purifying selection is the dominant signature. Proceedings of the National Academy of Sciences, USA 106:7073-7078. https://doi.org/10.1073/pnas.081135710 [I.F.: 9.4]
* Corresponding Author
For more lab activities and achievements, please visit our social media pages:
Linkedin: https://www.linkedin.com/in/souvik-mukherjee-9bb815270/
Twitter: https://twitter.com/smlab_NIBMG
The human microbiome is considered as the Second Genome and comprises of
50% of cells in the human body. The Human Microbiome Project (HMP) has
unravelled the healthy human microbiome from different parts of the human body
in Western populations. However, studies have clearly shown that there are
significant differences in the composition and diversity of the healthy human microbiome
in other world populations. The power of the human microbiome is recently being
harnessed to understand its contribution in the maintenance of health and the
changes that leads to the predisposition to various diseases in humans.
The main research goal of our human microbiome research (HMR) team in
NIBMG is to characterize the genomic and metagenomic factors that contribute to
the predisposition and progression of chronic, inflammatory conditions/diseases
in humans with special reference to Indian populations. Besides this, we are
also interested in studying the population genetics and molecular evolution of
host-pathogen interacting genes, particularly the Innate Immune system to
identify definite natural selection signatures acting on these genes across
Human populations.
Broadly, our HMR team works on two major research areas:
(A) Chronic
Inflammatory Autoimmune Skin Diseases and Antibiotic Resistant Wounds
Our laboratory is the first to characterize the Healthy Skin Microbiome in an Indian population of Dravidian descent which showed significant differences from Western Skin as well as Chinese Skin Microbiome. We also proved that change in quantitative levels of specific biophysical parameters in the Human skin can significantly predict the structure and composition of the Human Skin Microbiome. Based on our findings, we are involved in deciphering the host-microbiome interactions in inflammatory skin conditions like Psoriasis, Atopic Dermatitis etc.
In a different study, our research team is dedicated to unravel the viable but non culturable (VBNC) wound microbiome that leads to the development of antibiotic resistance in chronic, non healing diabetic foot ulcers (DFUs). DFUs are a dreaded complication of diabetes and comprise about 25% of the total number of diabetic patients worldwide.
(B) Maternal and
Child Health: Preterm Birth and Childhood Growth Failure
Our laboratory is a part of a multi-institutional, multi-omics consortium
on preterm birth using the GARBH-Ini cohort, the largest mother and child cohort
in India. In this study, we aim to identify the significant changes in the
vaginal microbiome in all the trimesters that leads to preterm birth in Indian
women in collaboration with THSTI. We have jointly published the first paper on the dysbiotic vaginal
microflora in Indian women associated with preterm birth. Currently, the
results are being validated in a larger sample size and functional implications
of the genomic findings are being tested in appropriate platforms.
Our lab is also interested to study the host-microbiome interactions that leads to early child growth failures like stunting, wasting and malnutrition and the effect of interventions in ameliorating the same in well characterized child cohorts WINGS and ciKMC in collaboration with
CHRD-SAS, a WHO collaborating centre for research, community based action and
program development in child health in India. Currently, our HMR team is interested
in characterizing the metagenomic biomarkers of early infancy growth failure in
children in the first 1 year of life.
For all our studies, we depend on affected individuals visiting hospital
OPDs in and around Kolkata and Kalyani. Wet and dry Lab investigations are
carried out in both NIBMG, Kalyani (Main Campus) and Biomedical Genomics Unit
(BMGU) of NIBMG in P G Polyclinic Building, Kolkata. BMGU is in close proximity
to several tertiary care hospitals in Kolkata which facilitates real-time
sample collection and its processing that is crucial for metagenomic studies
involving chronic diseases in Humans.
In NIBMG, we have established a state of the art Human Microbiome Research (HMR) Laboratory equipped with BSL-2 cabinet, bead beater homogenizer and micro-centrifuge for microbiome DNA isolation from human specimens; thermal cycler (PCR machine), Gel electrophoresis and imaging systems (Gel Doc apparatus) for estimation of amplified products; Anaerobic Chamber for culturing the viable anaerobes from patient samples; human cell line-microbiome co-culture facility consisting of Phase Contrast Microscope, centrifuge micro-centrifuge, BSL-2 cabinet and CO2 incubators for both aerobic and anaerobic conditions. Our metagenomic data analysis is supported by Computer Workstations with parallel computing facility and high computational power.
|
Year |
Degree |
University |
|---|---|---|
| 2012 | Ph.D |
University of Calcutta (Dept. of Biotechnology)
[Place of Research: NIBMG, Kalyani & TCG-ISI CpG, Kolkata]
|
| 2003 | M.Sc |
University of Calcutta (Dept. of Biochemistry) |
| 2001 | B.Sc |
University of Calcutta (Dept. of Chemistry, Vivekananda College) |
Professional Memberships
| Year | Award |
| 2018 |
Grant Award from Wellcome-DBT India Alliance and EMBO for hosting India-EMBO Symposium, 2019 on Human Microbiome: Resistance and Disease with J. Craig Venter Institute, USA |
| 2016 | Genome Project Grant Award from SciGenom Research Foundation (SGRF) |
| 2016 | International Travel Award in “13th International Congress of Human Genetics (ICHG 2016)” held in Kyoto, Japan |
| 2014 | Best Poster Award in “ICHG 2014 & 39th Annual Meeting of Indian Society of Human Genetics” held in BHU |
| 2013 | DST International Travel Award for “Joint Conference of HGM 2013 and 21st International Congress of Genetics” held in Singapore |
| 2005 | CSIR-UGC Lectureship |
| 2003 | CSIR-JRF |
| 2003 | GATE-XL Life Science |
Ongoing Projects
(A) Chronic Inflammatory Skin Diseases and Antibiotic Resistant Wounds
(B) Maternal and Child Health: Preterm Birth and Childhood Growth Failure
(C) Diabetes and Related Complications
(D) Genomic Surveillance for Novel Pathogens
Invited/Special lectures
|
Year |
Invited Talk/Special Lectures |
|
2025 |
SERB-Scientific Social Responsibility Program for
Guahati University at BRIC-NIBMG |
|
2025 |
6th Annual National Conference MCCCON 2025 on
'Biotechnology for Healthier Life' held at Midnapur City College |
|
2025 |
In the Symposium 'Exploring the Nexus of Microbiology and Innovation' at Scottish
Church College, Kolkata |
|
2024 |
17th International Congress of Nutrigenomics and
Nutrigenetics (ISNN 2024) |
|
2024 |
Diabetic Retinopathy Microbiome Study (DRMS) 6th
Investigator's Meeting at Sankaradeva Netralaya in Guwahati |
|
2024 |
AMRC 2024 organized by ICMR-NICED and BRIC-IBSD
in Science City, Kolkata |
|
2024 |
14th Probiotic Symposium in RGCB,
Thiruanantapuram, Kerala |
|
2024 |
AMR Conference of the Microbiological Society Organized
by IISER Kolkata in Newtown, Kolkata |
|
2023 |
International Symposium on Biotechnology (ISBT)
held at St. Xavier’s College, Kolkata |
|
2023 |
EMBO | EMBL Symposium: The human microbiome in
Heidelberg, Germany |
|
2023 |
Workshop conference on Human Microbiome In Health
And Disease (HMCW_2023) at THSTI, Faridabad. |
|
2023 |
Annual conference of Indian Society of Human
Genetics, Vizag, Visakhapatnam |
|
2022 |
Augusto Career Fair in St. Augustine's
Day School, Barrackpore |
|
2022 |
TROPACON: Indian Academy of Tropical Parasitology
Conference in Zoram Medical College, Mizoram |
|
2022 |
NIBMG Winter School on Epidemiological and
Genomic Methods for the Study of Human Diseases |
|
2022 |
NIBMG-Hands on workshop on COVID-19 Waste Water Surveillance
A non-invasive early warning surveillance tool |
|
2022 |
Accelerate Vigyan, Karyashala (High-end Workshop)
Programme, SERB, Govt. of India at JIS Institute of Advanced Studies & Research |
|
2022 |
Kolkata Chapter of Microbiologist Society of India
on World Microbiome Day |
|
2022 |
2nd National Conference on Biotechnology and One
Health in Brainware University, Kolkata |
|
2021 |
Invited talk on Human Microbiome in Health and
Disease for B.Tech students in UEM, Kolkata in Dec, 2021 |
|
2021 |
NIBMG-IPGMER Workshop in BMGU, Kolkata in Dec,
2021 |
|
2020 |
Popular Science Lecture on Microbiome in Human
Health and Diseases in Indian International Science Festival (IISF-2020) |
|
2020 |
Invited Lecture in International Conference on
“Gene Expression”- Bangabasi College |
|
2020 |
10th India Probiotic Symposium at Hotel Suryaa,
New Delhi |
|
2020 |
International Collaborative Diabetic Foot
Conference in PGIMER, Chandigarh |
|
2020 |
Outreach Program of Calcutta Consortium on Human
Genetics for visit of B.B. College, Asansol in NIBMG |
|
2019 |
Invited Lecture in Molecular Diagnostics Workshop
at BMGU, NIBMG |
|
2019 |
India-EMBO Symposium on Human Microbiome:
Resistance and Disease in NIBMG |
|
2019 |
4th Advanced Research Training Workshop for North
Eastern Region held in NIBMG |
|
2019 |
Invited Lecture at Dept. of Botany, Lady
Brabourne College, Kolkata |
|
2019 |
Invited talk in the Lecture Series 2018-19 in
Dept. of Genetics, University of Calcutta |
|
2018 |
Invited Lecture in the Workshop on Metagenomics
in Fisheries Research at ICAR-CIFRI, Barrackpore |
|
2018 |
9th India Probiotic Symposium at Amity
University, Kolkata |
|
2018 |
Indian International Science Festival (IISF2018),
Indira Gandhi Pratisthan, Lucknow |
|
2018 |
Invited Talk in Symposium on 'Microbes and
Human Survival', Acharya Bhavan, Kolkata |
|
2018 |
43rd Annual Meeting of the Indian Society of
Human Genetics, CCMB, Hyderabad |
|
2018 |
Invited Lecture in 18th All India Congress on
Cytology and Genetics, IICB, Kolkata |
|
2017 |
Invited Lecture in West Bengal Branch of IRA
Annual Conference, The Park, Kolkata |
|
2017 |
Invited Lecture in FOGSI FIRST WORLD CONGRESS on
Why Fetus Die In Utero, Stadel, Kolkata |
|
2017 |
Medical Biotechnology Lecture in Dept. of Biotechnology,
St. Xavier's College |
|
2017 |
Indo-US Workshop on Genomics and Bioinformatics
to Explore Human Microbial Ecology in Health and Disease held in THSTI,
Faridabad |
|
2017 |
International Conference on Impact of Climate
change in Biodiversity Hotspots of North East India held in Dept. of
Biotechnology, Assam University, Silchar |
|
2017 |
Invited Lecture in the Ph.D. Course work of Dept.
of Biochemistry, University of Calcutta |
|
2017 |
9th SERB Young Scientist Life Sciences Group
Monitoring Workshop in KIIT, Bhubaneswar |
|
2016 |
CCHuGe Lecture in Platinum Jubilee celebration of
P. Jagannath Institution, PurbaMedinipur |
|
2016 |
Invited Lecture in the 82nd Annual Meeting of
Indian Academy of Sciences in IISER, Bhopal |
|
2016 |
Medical Biotechnology Lecture in Dept. of
Biotechnology, St. Xavier's College |
|
2016 |
Keynote Lecture in YU-IOB Center for Systems
Biology and Molecular Medicine (YU-IOB CSBMM) by Yenepoya University (YU),
Mangalore and IOB, Bangalore |
|
2016 |
Summer School in Bioinformatics (SSIB 2016) organized
by Amplicon Biosciences |
|
2016 |
13th International Congress of Human Genetics
held in Kyoto, Japan |
|
2016 |
Invited Lecture in Prof. Patrick Lee’s Lab,
School of Energy and Environment, City University of Hong Kong, Hong Kong |
|
2016 |
RADIUM Lecture in Tata Translational Cancer
Research Centre, TMC, Kolkata |
|
2015 |
17th All India Congress of Cytology and Genetics
and Symposium on “Exploring Genomes: The New Frontier” held in IICB, Kolkata |
|
2015 |
Winter School in Bioinformatics organized by Amplicon
Biosciences |
|
2015 |
Medical Biotechnology Lecture in Dept. of
Biotechnology, St. Xavier's College |
|
2014 |
Workshop on In Silico data analyses and
Cheminformatics in Presidency University |
|
2013 |
National Seminar on Mathematical Insights in
Bioinformatics by Presidency University, Kolkata held in Calcutta
Mathematical Society |
|
2013 |
CDFD Research Seminar in Centre for DNA
Fingerprinting and Diagnostics, Hyderabad |
|
2012 |
UGC Workshop titled 'Application of Biostatistics
in Biology and Clinical Research' held in Hooghly Mohosin College, West
Bengal |
Nath S, Sarkar M, Maddheshiya A, De D, Paul S, Dey S, Pal K, Roy SR, Ghosh A, Sengupta S, Paine SK, Biswas NK, Basu A, MUKHERJEE S* (2023) Upper respiratory tract microbiome profiles in SARS-CoV-2 Delta and Omicron infected patients exhibit variant specific patterns and robust prediction of disease groups. Microbiology Spectrum. https://doi.org/10.1128/spectrum.02368-23 [I.F. = 3.7]
Mukherjee, P., Paul, S., Dutta, T., Nath S, Ghosh B, Chatterjee D, Mukhopadhyay S, MUKHERJEE S* (2023) Nasal MRSA carriage is a risk factor for development of antibiotic resistance in diabetic foot ulcers and is significantly higher than diabetic and non-diabetic individuals without foot ulcer. BMC Infect Dis 23, 729 (2023). https://doi.org/10.1186/s12879-023-08673-3 [I.F.=3.4]
Nath, S., Kumari, N., Bandyopadhyay, D., Sinha, N., Majumder, P. P., Mitra, R., & MUKHERJEE, S* (2020) Dysbiotic Lesional Microbiome With Filaggrin Missense Variants Associate With Atopic Dermatitis in India. Front Cell Infect Microbiol. 10, 570423. https://doi.org/10.3389/fcimb.2020.570423 [I.F.: 4.6]
MUKHERJEE S*, Mitra R, Maitra A, Gupta S, Kumaran S, Chakrabortty A & Majumder PP. (2016) Sebum and Hydration Levels in Specific Regions of Human Face Significantly Predict the Nature and Diversity of Facial Skin Microbiome. Scientific Reports 6, 36062; doi 10.1038/srep36062. [I.F.: 3.8]
MUKHERJEE S*, Ganguli D and Majumder PP. (2014) Global Footprints of Purifying Selection on Toll-Like Receptor Genes Primarily Associated with Response to Bacterial Infections in Humans. Genome Biology and Evolution. 6:551–558. https://doi.org/10.1093/gbe/evu032 [I.F.: 3.3]
MUKHERJEE S, Sarkar-Roy N, Wagener DK, Majumder PP. (2009) Signatures of natural selection are not uniform across genes of innate immune system, but purifying selection is the dominant signature. Proceedings of the National Academy of Sciences, USA 106:7073-7078 https://doi.org/10.1073/pnas.081135710 [I.F.: 9.4]
* Corresponding Author
As Co-Author:
[GARBH-Ini Study Group: Bal V, Bhatnagar S, Das B, Dash M, Desiraju BK, Kshetrapal P, Misra S, Natchu UCM, Rath S, Sachdeva K, Sharma D, Singh A, Sopory S,Thiruvengadam R, Wadhwa N, Maitra A, Majumder PP, Mukherjee S, Maiti TK, Bahl M, Bansal S, Mehta U, Sharma S, Sindhu B, Arya S, Bharti R, Chellani H, Mittal P, Garg A, Ramji S, Khurana A, Tripathi R, Goyal A, Gupta Y, Hari S, Tandon N, Gupta R, Salunke DM, Nair GB & Kang G]
[Collaborators: Maitra A, Biswas NK, Amin K, Kowtal P, Kumar S, Das S, Sarin R, Majumder PP, Bagchi I, Bairagya BB, Basu A, Bhan MK, Chaturvedi P, Das D, D'Cruz A, Dhar R, Dutta D, Ganguli D, Gera P, Gupta T, Mahapatra S, Mujawar MH, Mukherjee S, Nair S, Nikam S, Nobre M, Patil A, Patra S, Rama-Gowtham M, Rao TS, Roy B, Roychowdhury B, Sarkar D, Sarkar S, Sarkar-Roy N, Sutradhar D]
Book Chapters
Mukherjee S (2019) The Microbiome in Skin Health and Disease. Edited by: Nair G.B., Kurpad A.V. and Takeda Y. Probiotics in Health- Emerging Opportunities. Wiley India Pvt. Ltd.
Chowdhury A, Mukherjee S (2015) Importance of Gut Microbiome in the Pathogenesis of NAFLD and NASH. Edited by: Kumar A, Anand A.C., Duseja A, Wadhawan M. Monograph on Non-Alcoholic Steatohepatitis (NASH), Academic Wing of the Association of Physicians of India, Indian College of Physicians (Published in the ISGCON 2015 Conference)
Ms. Mousumi Sarkar, UGC-SRF (https://www.nibmg.ac.in/p/postdocphd?type=5&q=mousumi+sarkar)
Mr. Shankha Nath, ICMR-SRF (https://www.nibmg.ac.in/p/postdocphd?type=5&q=shankha+nath)
Ms. Ankita Maddheshiya, CSIR-SRF (https://www.nibmg.ac.in/p/postdocphd?type=5&q=Ankita+Maddheshiya)
Mr. Shouvik Paul, DBT-SRF (https://www.nibmg.ac.in/p/postdocphd?type=5&q=Shouvik+paul)
Mr. Aditya Agarwal, UGC-SRF
Ms. Laxmi Devi, UGC-JRF (iBRIC PhD student)
Mr. Sayantan Daripa, iPhD Intern 2024-25
Mr. Shreesh Mukherjee, Project JRF
Past Lab Members
Dr. Debjit De
Dr. Vani A
Dr. Pieu Adhikary
Ms. Naina Kumari
Ms. Samiha T Ghori
Mr. Tanmoy Dutta (iPhD Intern 2021)
