Curriculum Vitae of Dr Justin Bahl Center for Infectious Diseases

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Curriculum Vitae of Dr Justin Bahl
Center for Infectious Diseases
The University of Texas School of Public Health
https://sph.uth.edu/justinbahl/
http://www.duke-nus.edu.sg/web/research/faculty/bahl-justin
Career synopsis
My major research focus is on the molecular epidemiology, ecology, genetic and
antigenic evolution, population dynamics, and interspecies transmission dynamics of
emerging infectious diseases, particularly influenza. My research is directed towards
uncovering how population structure, host immune pressure and transmission bottlenecks
shape viral genetic diversity. I am currently an Associate Professor (tenure track) at The
University of Texas School of Public Health. I have successfully secured research
funding as Principal Investigator (~US$300,000) and am a Co-Investigator/Collaborator
with the NIAID/NIH Centers of Excellence in Influenza Research and Surveillance
(~US$58 million).
Publications
I have a >20 peer-reviewed publications in leading journals such as Nature,
PNAS, Journal of Virology, and Emerging Infectious Diseases. My H-index is 15 with
>1800 citations.
Google Scholar Profile
http://scholar.google.com/citations?user=VQ5JSeQAAAAJ&hl=en
Academic Degrees
PhD – 2007
The University of Hong Kong, Hong Kong (Molecular Systematics
and Evolution)
BSc (Hons) – 2001
The University of Toronto, Toronto, Canada, (Botany)
Professional Employment:
Mar 2013 – Present
Associate Professor The University of Texas Health Science Center
at Houston
Mar 2013 – Present
Adjunct Assistant Professor Duke-NUS Graduate Medical School,
Singapore
Oct 2011 –Feb 2013 Assistant Professor (Non-Tenure Track) Duke-NUS Graduate
Medical School, Singapore
Apr 2010 – 2011
Research Fellow Duke-NUS Graduate Medical School, Singapore
Curriculum Vitae of Dr. Justin Bahl
June, 2013
Mar 2010
Visiting Scientist. Infectious Diseases, St Jude Children’s Research
Hospital, Memphis USA
2008 – 2010
Post-Doctoral Fellow. Department of Microbiology, HKU. Hong
Kong.
2007 – 2008
Senior research Assistant. Department of Microbiology, HKU.
Hong Kong.
Honorary Positions
Mar 2007-Mar 2014 Member, NIAID/NIH Center of Excellence for Influenza Research
and Surveillance, St Jude Children’s Research Hospital, Memphis,
TN, USA
Jan 2007-present
Member, Institute of Infection and Immunity, Shantou University,
Guangdong, China
April 2011-present
Visiting Scientist, Influenza Division, Centers for Disease Control
and Prevention, Georgia, USA
Collaborators
St Jude, Richard Webby, Robert Webster, Stacey Shultz-Cherry; CDC, Ruben Donis,
Alexander (Sasha) Klimov, Todd Davis, Rebecca Garten, Sam Sheppard; Duke-NUS,
Gavin Smith, Vijaykrishna Dhanasekaran, Mathieu Fourment, Ian Mendenhall, Duane
Gubler, Eng Eong Ooi, Brett Ellis, Esther Ellis; Penn State Edward C Holmes; Imperial
College Steven Riley; University of Edinburgh Andrew Rambaut; Oxford University
Oliver Pybus; The University of Auckland, Alexei Drummond, Denise Kühnert; FIC
Martha Nelson; Erasmus Medical University, Ron Fouchier, Miranda de Graaf;
Cambridge University, Nicola Lewis; JCVI, David Wentworth, Vivien Dugan, Rebecca
Halpin
Further details of professional achievements and interests are provided as follows:
Annex A – Publications, Book Chapters and Proceedings
Page 3-5
Annex B – Awards and Grants
Page 6
Annex C – Service and Professional Affiliations.
Page 7
Annex D – Courses Instructed
Page 8
Annex D – Invited Lectures and Conference Presentations
Page 9
Annex E – Current Projects
Page 10
2
Annex A
Publications
1.
Bahl J, Krauss S, Kühnert D, Fourment M, Raven G, Pryor SP, Niles LJ, Danner
A, Walker D, Mendenhall I, Su YCF, Dugan VG, Halpin RA, Stockwell TB,
Wentworth DE, Webby RJ, Drummond AJ, Smith GJD, Webster RG (2013).
Spatial diffusion of avian influenza A virus in North America across migratory
flyways. PLoS Pathogens In Review
2.
Manokaran G, Bidet K, Bahl J, Gubler DJ, Sessions OM, Ooi EE (2013).
Subgenomic Flavivirus RNA-mediated Suppression of the Interferon Response is
linked to Dengue Epidemic. PLoS Pathogens In Review
3.
Duan S, Govorkova EA, Bahl J, Zaraket H, Baranovich T, Seiler P, Prevost K,
Webster RG, Webby RJ (2013). Multi-step acquisition of neuraminidase molecular
determinants explains the spread of oseltamivir-resistant H1N1 influenza viruses
during 2008-2009. Cell Host and Microbe. In Review
4.
Shepard. SS, Davis CT, Bahl J, Rivailler P, York IA Donis R (2013). LABEL: fast
and accurate lineage assignment with assessment of H5N1 and H9N2 influenza A
hemagglutinins PLoS Computational Biology In Review
5.
Mendenhall IH, Bahl J, Blum MJ & Wesson DM (2012). Genetic structure of
Culex erraticus populations across the Americas. Journal of Medical Entomology
49:522-34
6.
WHO⁄ OIE ⁄FAO H5N1 Evolution Working Group (2012) Continued evolution of
highly pathogenic avian influenza A (H5N1): updated nomenclature. Influenza and
Other Respiratory Viruses DOI:10.1111/j.1750-2659.2011.00298.x
7.
Bahl J*, Nelson MI, Chen R, Ghedin E, Halpin R, Stockwell T, Lin X,
Vijaykrishna D, Chan KH, Peiris JSM, Riley S, Rambaut R, Holmes EC Smith
GJD* (2011) Temporally structured meta-population dynamics of human influenza
A H3N2 virus. Proceedings of the National Academy of Science USA
DOI:10.1073/pnas.1109314108 *corresponding author
8.
Vijaykrishna D, Smith GJD, Pybus OG, Zhu H, Bhatt S, Poon LLM, Riley S, Bahl
J, Ma SK, Cheung CL, Perera RAPM, Chen H, Shortridge KF, Webby RJ, Webster
RG, Guan Y, Peiris JSM (2011) Long-term evolution and transmission dynamics of
swine influenza A virus. Nature 473: 519-522
9.
Bahl J*, Lau MCY*, Smith GJD*, Vijaykrishna D*, Cary SC, Chan Y, Lacap DC,
Lee CS, Papke RT, Warren-Rhodes KA, Wong FKY, McKay CP, & Pointing SB
(2011) Ancient origins determine global biogeography of hot and cold desert
cyanobacteria. Nature Communications 25;2:163. [*equal contribution]
10.
Ducatez MF, Bahl J, Griffin Y, Stigger-Rosser E, Franks J, Barman S,
Vijaykrishna D, Webb A, Guan Y, Webster RG, Smith GJD, Webby RJ. (2011).
Cross-clade protective vaccine developed from reconstructed ancestral H5N1
influenza viruses. Proceedings of the National Academy of Science USA 108:
349-354 doi: 10.1073/pnas.1012457108
3
Curriculum Vitae of Dr. Justin Bahl
June, 2013
11.
Huang K*, Bahl J*, Fan XH, Vijaykrishna D, Cheung CL, Webby RJ, Webster
RG, Chen H, Smith GJD, Peiris JSM, Guan Y. (2010) Establishment of an H6N2
influenza virus lineage in domestic ducks in southern China. Journal of Virology
84:6978-86 [*equal contribution]
12.
Guan Y, Vijaykrishna D, Bahl J, Huachen Z, Wang J, Smith GJD. (2010). The
emergence of pandemic influenza viruses. Protein & Cell 1:9–13.
13.
Schrenzel MD, Witte CL, Bahl J, Tucker TA, Fabian N, Greger H, Hollis C, Hsia
G, Siltamaki E, Rideout BA. (2010). Genetic characterization and epidemiology of
Helicobacters in non-domestic animals. Helicobacter 15:126-42
14.
Smith GJD*, Vijaykrishna D*, Bahl J*, Lycett SJ*, Worobey M*, Pybus OG*, Ma
SK, Cheung CL, Raghwani J, Bhatt, S, Peiris JSM, Guan Y, Rambaut A* (2009).
Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A
epidemic. Nature 459:1122-5 [*equal contribution]
15.
Smith GJD*, Bahl J*, Vijaykrishna D*, Zhang JX, Poon LLM, Chen H, Webster
RG, Peiris JSM, Guan Y (2009). Dating the emergence of pandemic influenza
viruses. Proceedings of the National Academy of Science USA 106:11709-12
[*equal contribution]
16.
Bahl J, Vijaykrishna D, Holmes EC, Smith GJD, Guan Y (2009). Gene flow and
competitive
exclusion
of
avian
influenza
A
virus.
Virology,
doi:10.1016/j.virol.2009.05.002.
17.
Smith GJD, Vijaykrishna D, Ellis TM, Dyrting KC, Leung YHC, Bahl J, Wong
CW, Kai H, Chow MKW, Duan L, Chan ASL, Zhang LJ, Chen H, Luk GSM,
Peiris JSM, Guan Y (2009). Characterization of Avian Influenza Viruses A (H5N1)
from Wild Birds, Hong Kong, 2004-2008. Emerging Infectious Diseases 15: 402–
407.
18.
Vijaykrishna D, Bahl J, Riley S, Duan L, Zhang J, Chen H, Peiris JSM, Smith
GJD, Guan Y (2008). Evolutionary dynamics and emergence of panzootic H5N1
influenza viruses. PLoS Pathogens 4: e1000161.
19.
Duan L, Bahl J, Smith GJD, Wang J, Vijaykrishna D, Zhang LJ, Zhang JX, Li KS,
Fan XH, Cheung CL, Huang K, Poon LLM, Shortridge KF, Webster RG, Peiris
JSM, Chen H, Guan Y (2008). The development and genetic diversity of H5N1
influenza virus in China, 1996–2006. Virology 380: 243–254.
20.
Al-Azemi A, Bahl J, Al-Zenki S, Al-Shayji Y, Al-Ahmad S, Chen H, Guan Y,
Peiris JSM, & Smith GJD (2008). Avian influenza A virus (H5N1) outbreaks,
Kuwait, 2007. Emerging Infectious Diseases 14: 958-961
21.
Wang J, Vijaykrishna D, Duan L, Bahl J, Zhang JX, Webster RG, Peiris JSM,
Chen H, Smith GJD, Guan Y (2008). Identification of the progenitors of Indonesia
and Vietnam avian influenza A (H5N1) viruses from southern China. Journal of
Virology 82: 3405-3414.
22.
Xu KM, Smith GJD, Bahl J, Duan L, Tai H, Vijaykrishna D, Wang J, Zhang JX, Li
KS, Webster RG, Chen H, Peiris JSM, Guan Y (2007). The genesis and evolution
4
of H9N2 influenza viruses in poultry from southern China, 2000 to 2005. Journal
of Virology 81: 10389-10401.
23.
Cheung CL, Vijaykrishna D, Smith GJD, Fan XH, Zhang JX, Bahl J, Duan L,
Huang K, Tai H, Wang J, Poon LLM, Peiris JSM, Chen H, Guan Y (2007).
Establishment of influenza A virus (H6N1) in minor poultry in southern China.
Journal of Virology 81: 10402-10412.
24.
Bahl J, Jeewon R, & Hyde KD (2005). Phylogeny of Rosellinia capetribulensis sp.
nov. and its allies (Xylariaceae). Mycologia 97: 1102-1110.
Book chapters / Proceedings
1.
Smith GJD, Bahl J, Vijaykrishna D (2012). Genetic analysis. In Influenza:
Methods in Molecular Biology 865:207-27. (eds Kawaoka Y, Neumann G),
Humana Press.
2.
Bahl J, Vijaykrishna D, Smith GJD, Webster RG, Y Guan. Evolutionary dynamics
of avian influenza A virus in the natural reservoir. Proceedings of the Options for
the Control of Influenza VI, June 17–23, 2007 Toronto, Ontario, Canada.
3.
Vijaykrishna D, Smith GJD, Bahl J, Wang J, Webster RG, Guan Y (2007). Dating
the emergence of influenza A (H5N1) virus. Proceedings of the Options for the
Control of Influenza VI, June 17–23, 2007 Toronto, Ontario, Canada.
4.
Cheung CL, Vijaykrishna D, Smith GJD, Bahl J, Fan XH, Zhang JX, Chen H,
Guan Y. Establishment of influenza A virus (H6N1) in minor poultry in southern
China. Proceedings of the Options for the Control of Influenza VI, June 17–23,
2007 Toronto, Ontario, Canada.
5.
Duan L Campetelli L, Smith GJD, Bahl J, Donatelli I, Webster RG, Shortridge KF,
Peiris JSM, Chen H, Guan Y. Characterization of low pathogenic H5 subtype
influenza viruses from Eurasia: Implications for the origin of highly pathogenic
H5N1 viruses. Proceedings of the Options for the Control of Influenza VI, June 17–
23, 2007 Toronto, Ontario, Canada.
6.
Wang J, Smith GJD, Bahl J, Li KS, Duan L, Vijaykrishna D, Chen H, Guan Y,
Identification of precursors of Indonesia and Vietnam Avian Influenza A (H5N1)
viruses from southern China. Proceedings of the Options for the Control of
Influenza VI, June 17–23, 2007 Toronto, Ontario, Canada.
5
Curriculum Vitae of Dr. Justin Bahl
June, 2013
Annex B
Scholarship and Awards
2013-2014
Principal Investigator. “Unifying molecular evolution, spatial
epidemiology and host adaptation of emerging influenza A viruses”
Pilot Project Grant. NIAID-NIH St Jude Center for Excellence in
Influenza Research and Surveillance (US$ 183,000)
2011-2012
Principal Investigator. “Spatial and temporal dynamics of avian
influenza A in wild birds” NIAID Influenza Genome Sequencing Project
(Funding to sequence 700 influenza viral genomes)
Sept 2011
European Scientific Working group on Influenza, “Young Scientist
Award” (US$1,500)
2011-2012
Principal Investigator. “Adaptation and divergence of H1N1/2009
influenza A virus under controlled experimental conditions” National
Medical Research Council – New Investigator Grant. (US$140,000)
Sept 2010
Options for the Control of Influenza. Promising Young Investigator
Award. “Source-sink dynamics of H3N2 seasonal influenza.“
(Approximately US$8,000)
May 2010
The University of Hong Kong. Faculty Outstanding Research Output
Award for “The origins and evolutionary genomics of the 2009 swineorigin H1N1 influenza epidemic” published in Nature. (US$10,000)
2010
NIAID/NIH Selected Science Advances 2009 for “Rapid Characterization
of the 2009 H1N1 Influenza Virus”
2002-2006
The University Grants Council Post-graduate Research Scholarship The
University of Hong, Hong Kong SAR, China (US$85,000)
Other indirect support
2010-2012
Co-Investigator “Evolutionary genomics of the 2009 swine-origin H1N1
influenza A pandemic virus” National Medical Research Council. PI –
Gavin JD Smith, Duke-NUS Graduate Medical School (US$850,000)
2007-2014
Collaborator “NIAID Centers of Excellence for Influenza Research and
Surveillance” National Institutes of Health USA. PI – Robert Webster, St
Jude Children’s Research Hospital (US$57,420,278)
6
Annex C
Professional Membership and Service
2012 -
Member, Influenza Research Database (www.fludb.org) Scientific
Working Group, Appointment Pending
2010–2014
Member, CEIRS Influenza Research Database Scientific Working Group,
DMID/NIAID/NIH Centers of Excellence for Influenza Research and
Surveillance
2010 - 2011
Member, Research and Policy for Infectious Disease Dynamics
(RAPIDD), Division of International Epidemiology and Population
Studies (DIEPS), Fogarty International Center, National Institutes of
Health
2010-present
Member, International Society for Influenza and other Respiratory Virus
Diseases
2011-present
Member, World Health Organization Working Group on Evolution and
Nomenclature of Highly Pathogenic Avian Influenza A (H5N1) Virus
2006–present
WHO/OIE/FAO Working Group on Evolution and Nomenclature of
Influenza A (H5N1) Virus, 2006–present
2009
Member, World Health Organisation Working Group on Evolution and
Nomenclature of Pandemic Influenza A (H1N1) Virus
Editorial Board Member:
2012-2015
Infection Genetics and Evolution
Reviewer:
Proceedings of the National Academy of Sciences, Journal of Virology, Molecular
Biology and Evolution, Journal of Clinical Microbiology, Clinical Infectious Diseases,
Virology, Journal of General Virology, Archives of Virology, Virus Genes
7
Curriculum Vitae of Dr. Justin Bahl
June, 2013
Annex D
Courses Instructed
Jan-May 2012 “GMS6904 Introduction to Emerging Infectious Diseases.” Graduate
Course (2 Modules)
Jan-May 2012 “GMS6905 Developments in infectious diseases.” Graduate Seminar
Course.
June 2010
“Phylogenetic and Bioinformatics Workshop for the Analysis of Seasonal,
Pandemic and Avian Influenza Virus” Pasteur Institute, Ho Chi Minh
City, Vietnam.
Feb 2009
“Viral phylogenetics” – Pre-Congress workshop on viral phylogenetics &
bioinformatics, 8th Asia Pacific Congress of Medical Virology, Hong
Kong, February 25-29, 2009.
Aug 2009
“Molecular evolution” presented in Bioinformatics & Comparative
Genome Analysis: An EMBO World Practical Course, HKU-Pasteur
Research Centre, Hong Kong, 16-23 Aug 2009
2007 - 2009
“Viral phylogenetics & Bioinformatics”, Pasteur-Asia Virology Course,
HKU-Pasteur Research Centre, Hong Kong, (Annual short course)
2008-2009
“Viral evolution and phylogenetics” – course for Research staff, PhD
students and Postdocs at State Key Laboratory of Emerging Infectious
Diseases, The University of Hong Kong, Hong Kong.
8
Annex E
Invited Lectures and Conference Presentations
1.
J Bahl (2012) Long-term spatial diffusion patterns of avian influenza A virus is
independent of migratory flyways. 6th Orthomyxovirus Research Conference.
Quebec, Canada [Oral Presentation]
2.
J Bahl (2012). Long-term evolutionary consequences of viral migration between
wild bird populations. NIAID Centers of Excellence for influenza Research and
Surveillance, 6th Annual CEIRS Network Meeting. New York, USA [Invited
Speaker]
3.
J Bahl (2012) Global migration, seasonality and persistence of human influenza A
H3N2 virus. University of Texas, School of Public Health. Texas, USA [Invited
Speaker]
4.
J Bahl (2011) Source-sink dynamics of H3N2 seasonal influenza. Centers for
Disease Control and Prevention, Atlanta Georgia, USA [Invited Speaker]
5.
J Bahl (2009). Evolutionary genomics and genesis of pandemic influenza. British
Columbia Centres for Disease Control. British Columbia, Canada. [Invited
Speaker]
6.
J Bahl (2009). Evolutionary genomics and genesis of pandemic influenza. UGC
Area of Excellence Scheme “Control of Pandemic and Inter-Pandemic Influenza”
Hong Kong [Invited Speaker]
7.
J Bahl, YHC Leung, GJD Smith, D Vijaykrishna, TM Ellis, KC Dyrting, GSM
Luk, JSM Peiris, Y Guan (2009). Characterization of viruses isolated from wild
birds in Hong Kong. NIAID Centers of Excellence for influenza Research and
Surveillance, 3rd Annual CEIRS Network Meeting Minneapolis, USA [Invited
Speaker]
8.
J Bahl, R Jeewon, & KD Hyde (2005). Intergeneric relationships of Linocarpon
and Neolinocarpon: does phylogenetic analysis support the generic delineation?
Annual MSA-MSJ Meeting, Hilo, Hawaii, USA. [Oral presentation]
9.
J Bahl, R Jeewon, & KD Hyde (2004). Apiosporaceae, Clypeosphaeriaceae,
Hyponectriaceae, Myelospermataceae: Molecular and morphological assessment of
taxonomic hypotheses. The IV Asia-Pacific Mycological Congress & The IX
International Marine and Freshwater Mycology Symposium, 2004, Chiang Mai,
Thailand. [Oral presentation]
10.
J Bahl & KD Hyde, (2003). Studies of hyponectriaceous fungi. Fifth Annual
Scientific Meeting of the Mycological Association of Hong Kong. [Oral
presentation]
11.
J Bahl, R Jeewon, GJD Smith, & KD Hyde, (2002). Linocarpon vs Neolinocarpon
- Does phylogenetic analysis support the generic delineation? The Third Asian
Mycological Congress, Kunming China. [Oral presentation]
9
Curriculum Vitae of Dr. Justin Bahl
June, 2013
Annex F
Current Collaborative Projects
Comparative genomics and hypothesis testing
In collaboration with St Jude Children’s Research Hospital and the Centers for
Disease Control and Protection we are developing a population genetic framework for
statistical assessment of amino acid marker fixation for pathogenicity, host adaptation
anti-viral resistance and risk assessment. Other projects include molecular epidemiology
and evolutionary dynamics of Dengue Virus, the global distribution and evolution of
Cyanobacteria from environmental surveillance and metagenomics, and evaluating the
diversity and transmission of Astroviruses isolated from non-human primates.
Population genetic framework for statistical assessment of genotype-phenotype
correlations
H5N1 viruses continue to pose a pandemic threat. Recently a number of mutations
have been identified that correlate with the aerosol transmission of this virus between
mammalian models. By reconstructing the ancestral states of these mutations in a
Bayesian phylogenetic framework we can assess the likelihood of mutation fixation and
associated risk for H5N1 variant emergence (in collaboration with CDC). Extending this
principle we have taken a modelled approach to assess the sequence of mutations
associated with the emergence of antiviral resistance phenotypes (in collaboration with St
Jude) in seasonal H3N2, H1N1 and H1N1/2009 influenza A viruses.
Ecological and evolutionary dynamics of influenza A virus in wild birds
The discontinuous distribution of susceptible hosts may produce long periods of cocirculation of competing virus strains before lineage extinction occurs. In this study we
describe the complex migration dynamics underlying the persistence of viruses across
North America. We show that North-South migration was rapid but viruses were not
restricted to individual flyways. The viral gene pool mixed where east-west migration
between discrete sampling sites may take as long as several years. Estimation of
migration rates and patterns show that the long-term persistence and spatial transmission
of influenza A virus in wild birds was independent of bird migratory flyways. This study
highlights surveillance strategies, diversity in different locations and intra-continental
transmission patterns necessary for prediction of disease diffusion through wild bird
populations for both conservation and pandemic disease control and preparedness.
10

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