PShrestha

Pravin Malla
Shrestha
Associate Project Specialist
Email: 
pravin@berkeley.edu
Lab Phone: 
510.666-2564

Education

Ph.D. Molecular microbial ecology, International Max Planck Research School, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany, Feb 2007

M.S. Bioprocess Technology, Asian Institute of Technology (AIT), Bangkok, Thailand, 08/2003

 

 

Research

Research experience

Associate Project Specialist in the Energy Biosciences Institute (Prof. John Coates lab), University of California, Berkeley, USA, 03/2014-

Senior research fellow in the Department of Microbiology (Prof. Derek Lovley lab), University of Massachusetts, Amherst, USA, 12/ 2012 -02/2014

Post-doctoral research associate in the Department of Microbiology (Prof. Derek Lovley lab), University of Massachusetts, Amherst, USA, 12/ 2010 -11/2012

Post-doctoral research fellow in the Max Planck Institute for Terrestrial Microbiology (Dr. Werner Liesack lab), Marburg, Germany, 01/2007- 08/ 2010

Publications (*= corresponding author)

Review articles

 

1)     Shrestha PM#, Rotaru AE (2014). Plugging in or Going Wireless: Strategies for Interspecies Electron Transfer. Frontiers in Microbiology.  5:237.

2)     Lovley DR, Ueki T, Zhang T, Malvankar NS, Shrestha PM, Flanagan KA et al (2011). Geobacter: the microbe electric's physiology, ecology, and practical applications. Adv in Microbial Physiology. 59:1-100.

 

Research articles

 

2017

3)     Nowak, J, Shrestha, P, Weber, R, Loutey, D, McKennaǁ, A, Chenǁ, H, Coates, J, Goldstein, A. (2017). Identification of Biotransformation Pathways in a Petroleum Biosouring Environment using Soft Ionization and Ultrahigh Resolution Mass Spectrometry. Submitted

4)     Holmes, DE, Shrestha, PM, Walker, DJF, Dang, Y, Nevin, KP, Woodard, TL, Lovley, DR (2017) Metatranscriptomic evidence for direct interspecies electron transfer between Geobacter and Methanothrix species in methanogenic rice paddy soils. Appl Environ Microbiol 83:e00223-17. equally contributed to this work

2016

5)     Rotaru AE, Shrestha PM (2016). Editorial: Wired for life. Front Microbiol. 7: 662.

 

2015

6)     Liu F, Rotaru AE, Shrestha PM, Malvankar NS, Nevin KP, Lovley, DR (2015). Magnetite substitutes for a c-type cytochrome in extracellular electron exchange. Environmental Microbiology. 17: 648-655.

2014

7)     Shrestha, PM#, Malvankar NS, Werner J, Rotaru, AE, Franks, AE, Shrestha, M, Liu, F, Angenent, LT and Lovley, DR. (2014). Correlation between composition of microbial community and granule conductivity in anaerobic bioreactors for brewery wastewater treatment. Bioresource Technology. 174: 306-310.

8)     Rotaru AE, Shrestha PM, Liu F, Markovaite B, Chen S, Nevin K, Lovley DR (2014). Direct Interspecies Electron Transfer Between Geobacter metallireducens and Methanosarcina barkeri. Applied and Environ Microb. 80: 4599-4605.

9)     Smith JA, Tremblay PL, Shrestha PM, Snoeyenbos-West OL, Franks AE, Nevin KP, Lovley DR (2014). Going wireless: Fe(III) oxide reduction without Pili by Geobacter sulfurreducens strain JS-1. 80: 4331-4340.

10)  Cheng S, Rotaru AE, Shrestha PM, Malvankar N, Nevin K, Lovley DR (2014). Promoting interspecies electron transfer with biochar. Scientific Reports. 4: 5019.

11)  Rotaru AE, Shrestha PM, Liu F, Shrestha D, Shrestha M,  Embree M, Zengler K, Nevin K,  and Lovley DR. Novel (2014). A new model of electron flow during anaerobic digestion: direct interspecies electron transfer to Methanosaeta. Ene Environ Sci.  7:  408-415. equally contributed to this work

2013

12)  Nagarajan H, Embree M, Rotaru AE, Shrestha PM, Feist AM, Palsson BO, Lovley DR, Zengler K (2013). A multilevel characterization of interspecies electron transfer mechanisms and microbial

community dynamics of syntrophic associations. Nature communication. 4: 2809. (appeared as a research highlight - Disentangling syntrophy.  Nature Reviews Microbiology 12:7).

13)  Shrestha, PM,Rotaru, AE, Aklujkar, M, Liu, F, Shrestha, M, Summers, ZM, Malvankar, N, Flores, DC, and Lovley, DR. (2013). Syntrophic growth with direct interspecies electron transfer as the primary mechanism for energy exchange. Environ Microbiol Reps. 5:904-510

14)  Shrestha PM#, Rotaru A-E, Summers ZM, Shrestha M, Liu F, Lovley DR (2013). Transcriptomic and genetic analysis of direct interspecies electron transfer. Appl Environ Microbiol. 79: 2397-2404. (Spotlight: Metatranscriptomics reveals mechanisms for direct interspecies electron transfer. Appl Environ Microbiol. 79: 2111.

15)  Shrestha PM#, Nevin K, Shrestha M, Lovley DR (2013). When is a microbial culture “pure”? persistent cryptic contaminant escapes detection even with deep genome sequencing. mBio. 4: 2 e00591-12. (appeared as a research highlights - An impure “pure culture Nature Reviews Microbiology 11: 301.

2012

16)  Rotaru A-E, Shrestha PM, Liu F, Ueki T, Summers ZM, Lovley DR (2012). Interspecies electron transfer via hydrogen and formate rather than direct electrical connections in co-cultures of Pelobacter carbinolicus and Geobacter sulfurreducens. Appl Environ Microbiol.78:7645-7651.

17)  Liu F, Rotaru AE, Shrestha PM, Malvankar NS, Nevin KP, Lovley DR (2012). Promoting direct interspecies electron transfer with activated carbon. Ene Environ Sci. 5: 8982-8989.

18)  Shrestha PM, Kammann C, Lenhart K, Dam B, Liesack W (2012). Linking activity, composition and seasonal dynamics of atmospheric methane oxidizers in a meadow soil. The ISME journal. 6: 1115-1126.

 

2007-2011

19)  Shrestha M, Shrestha PM, Conrad R (2011). Bacterial and archaeal communities involved in the in situ degradation of 13C-labelled straw in the rice rhizosphere. Environ Microbiol Reps. 3:587–596.

20)  Shrestha M, Shrestha PM, Frenzel P, Conrad R (2010). Effect of nitrogen fertilization on methane oxidation, abundance, community structure, and gene expression of methanotrophs in the rice rhizosphere. The ISME journal. 4: 1545-1556.

21)  Mettel C, Kim Y, Shrestha PM, Liesack W (2010). Extraction of mRNA from soil. Appl Environ Microbiol.76: 5995-6000.

22)  Glockner J, Kube M, Shrestha PM, Weber M, Glockner FO, Reinhardt R et al (2010). Phylogenetic diversity and metagenomics of candidate division OP3. Environ Microbiol. 12: 1218-1229.

23)  Shrestha PM, Kube M, Reinhardt R, Liesack W (2009). Transcriptional activity of paddy soil bacterial communities. Environ Microbiol. 11: 960-970.

24)  Shrestha M, Abraham WR, Shrestha PM, Noll M, Conrad R (2008). Activity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids. Environ Microbiol. 10: 400-412.

25)  Shrestha PM, Noll M, Liesack W (2007). Phylogenetic identity, growth-response time and rRNA operon copy number of soil bacteria indicate different stages of community succession. Environ Microbiol. 9: 2464-2474.

26)  Shrestha, PM (2007). Bacterial community changes in a paddy soil oxygen gradient, assessed by cultivation and mRNA expression profiling. Ph.D. thesis

27)  Shrestha, PM (2003). Study of bacterial DNA compaction after slow lysis of spheroplast. M. Sc. thesis