User profiles for Dipti D. Nayak

Dipti D Nayak

Assistant Professor, Department of Molecular and Cell Biology, UC Berkeley
Verified email at berkeley.edu
Cited by 456

Cas9-mediated genome editing in the methanogenic archaeon Methanosarcina acetivorans

DD Nayak, WW Metcalf - Proceedings of the National …, 2017 - National Acad Sciences
Although Cas9-mediated genome editing has proven to be a powerful genetic tool in
eukaryotes, its application in Bacteria has been limited because of inefficient targeting or repair; …

Post-translational thioamidation of methyl-coenzyme M reductase, a key enzyme in methanogenic and methanotrophic Archaea

DD Nayak, N Mahanta, DA Mitchell, WW Metcalf - Elife, 2017 - elifesciences.org
10.7554/eLife.29218.001 Methyl-coenzyme M reductase (MCR), found in strictly anaerobic
methanogenic and methanotrophic archaea, catalyzes the reversible production and …

[HTML][HTML] Functional interactions between posttranslationally modified amino acids of methyl-coenzyme M reductase in Methanosarcina acetivorans

DD Nayak, A Liu, N Agrawal, R Rodriguez-Carerro… - PLoS …, 2020 - journals.plos.org
The enzyme methyl-coenzyme M reductase (MCR) plays an important role in mediating
global levels of methane by catalyzing a reversible reaction that leads to the production or …

[HTML][HTML] EfgA is a conserved formaldehyde sensor that leads to bacterial growth arrest in response to elevated formaldehyde

JV Bazurto, DD Nayak, T Ticak, M Davlieva, JA Lee… - PLoS …, 2021 - journals.plos.org
Normal cellular processes give rise to toxic metabolites that cells must mitigate. Formaldehyde
is a universal stressor and potent metabolic toxin that is generated in organisms from …

Methylamine Utilization via the N-Methylglutamate Pathway in Methylobacterium extorquens PA1 Involves a Novel Flow of Carbon through C1 Assimilation and …

DD Nayak, CJ Marx - Journal of bacteriology, 2014 - Am Soc Microbiol
Methylotrophs grow on reduced single-carbon compounds like methylamine as the sole
source of carbon and energy. In Methylobacterium extorquens AM1, the best-studied aerobic …

The dual role of a multi‐heme cytochrome in methanogenesis: MmcA is important for energy conservation and carbon metabolism in Methanosarcina acetivorans

BE Downing, D Gupta, DD Nayak - Molecular Microbiology, 2023 - Wiley Online Library
Methanogenic archaea belonging to the Order Methanosarcinales conserve energy using
an electron transport chain (ETC). In the genetically tractable strain Methanosarcina …

[HTML][HTML] Genetic and Phenotypic Comparison of Facultative Methylotrophy between Methylobacterium extorquens Strains PA1 and AM1

DD Nayak, CJ Marx - PLoS One, 2014 - journals.plos.org
Methylobacterium extorquens AM1, a strain serendipitously isolated half a century ago, has
become the best-characterized model system for the study of aerobic methylotrophy (the …

McrD binds asymmetrically to methyl-coenzyme M reductase improving active-site accessibility during assembly

…, S Ramesh, DA Mitchell, DD Nayak - Proceedings of the …, 2023 - National Acad Sciences
Methyl-coenzyme M reductase (MCR) catalyzes the formation of methane, and its activity
accounts for nearly all biologically produced methane released into the atmosphere. The …

Transcriptional regulation of methanogenic metabolism in archaea

KE Shalvarjian, DD Nayak - Current Opinion in Microbiology, 2021 - Elsevier
… The authors would like to acknowledge members of the Nayak lab for their feedback and
input. Molecular graphics were produced using the UCSF Chimera package from the …

[PDF][PDF] Selection maintains apparently degenerate metabolic pathways due to tradeoffs in using methylamine for carbon versus nitrogen

DD Nayak, D Agashe, MC Lee, CJ Marx - Current Biology, 2016 - cell.com
Microorganisms often encode multiple non-orthologous metabolic modules that catalyze the
same reaction. However, little experimental evidence actually demonstrates a selective …