We are fascinated by cyanobacteria. These green microbes are tiny machines that can fix carbon and nitrogen. They are ubiquitous, resilient and have survived on Earth for billions of years.

Image source: https://www.stevequayle.com/index.php?s=642

Research in our lab is driven by an interest in understanding how photosynthetic microorganisms perceive and evolve in response to environmental fluctuations of light, nutrients and phage attack. We focus on an ancient and diverse group of microbes called cyanobacteria. They are abundant, globally relevant and have been used to probe important processes such as photosynthesis, symbioses and circadian rhythms. Recently their environmental impact through toxic blooms and possible use as green chassis for high value products have gained attention.

latest news

  • September 2024

    Amanda Shelton was selected for the 2024 PacBio Microbial Genomics SMRT grant. She won the chance to perform shotgun metagenomics to understand the role of mobile elements, viruses, and horizontal gene transfer in hot springs microbial communities. Congratulations, Amanda!

  • August 5th 2024

    The Bhaya lab hosted Navajo STEM undergraduates from ASU and NTU at Carnegie on the Stanford campus.

  • July-September 2024

    Lyra Pfieffer joins Bhaya lab as a summer intern

  • May 2024

    Devaki Bhaya invited to give a seminar at Colorado State University.

  • April 14th 2024

    Amanda Shelton wins "Best Poster" award at the ASM regional meeting for her sterling research on uncovering community responses in hot spring microbial mats, using meta-genomics/transcriptomics!

  • April 2024

    Devaki Bhaya served as plenary speaker at the Conference of Research in Computational Molecular Biology on Comparative Genomic (RECOMB-CG) in Boston.

  • March 2024

    Devaki Bhaya invited as guest speaker for the Annual San Francisco Middle School Science Fair.

  • February 8th 2024

    Distinguished lectures in Microbioloby at the Department of Bacteriology.

  • February 2024

    Workshop at Rice University for NSF grant on Assembly Graphs.

  • February 2024

    Devaki Bhaya invited as a guest speaker at St. Francis Wednesday Yachting Luncheon (WYL) Talk Series. Recording of the full talk can be found here.

  • February 2023

    Lab research featured in Carnegie article titled “Hot springs, hot science”.

  • November 2023

    Devaki Bhaya presents poster at the Board of Trustees meeting in Pasadena, CA.

  • November 2023

  • September 2023

    Lab research highlighted in Carnegie Newsletter titled “New Frontiers in Biology”.

  • August 8, 2023

    Amanda will be presenting her work “Temporal biology of a microbial community revealed by diel metatranscriptomics” on August 21 at the 2023 Annual Genomics of Energy and Environment Meeting at the Joint Genome Institute.

  • August 2023

    Bhaya Lab said farewell to postdoc Freddy Bunbury as he takes an independent position at the University of Chicago. He will be missed!

  • August 2023

    Devaki Bhaya gives talk at Aspen Center for Physics workshop for Statistical Physics and Adaptive Immunity. The title of her talk was ”Cooperation and conflict in phototrophic communities”.

  • July 2023

    Seminars at Singapore Centre for Environmental Life Sciences Engineering (SCELSE) at Nanyang Technological University.

  • June 2023

    Devaki Bhaya gave a talk at ‘Behind the Scences: AEM Journal Spotlights from Lab to Pub (and Beyond!)’. ASM Microbe 2023 Title: “In the hot set: thermophilic microbial communities”.

  • May 2023

    Devaki Bhaya served as keynote speaker for the Genome Training Gran retreat at the University of California Berkeley.

  • April 2023

    Devaki Bhaya gave the Faculty Keynote address at the AnnualStanford Research Conference organized by Stanford Undergraduate Research Association (SURA).

  • February 24, 2023

    The lab welcomed Janie Kim, a 1st year Stanford Biology PhD student. Janie will be doing a rotation project this winter quarter to learn more about RNA viruses from the hot springs in Yellowstone National Park.

  • January 23, 2023

    The lab welcomed Ravalika Damerla, a 1st year Stanford BioE PhD student. Ravalika will be doing a rotation project this winter quarter to learn more about measuring gene expression in extremophilic microbes.

  • January 19, 2023

    Freddy, Amanda, Arthur and Devaki received a grant from JGI to study thermotolerance in thermophilic cyanobacteria.

  • December 17, 2022

    Amanda presented her work on diel metatranscriptomics in hot spring microbial mats to the West Coast Bacterial Physiologists meeting.

  • September 27, 2022

    An article about Devaki’s course, Partner with Trees, was published by Taylor Kubota in the Stanford report.

  • September 17, 2022

    The lab welcomed AyoOluwateso Coker, a Stanford Earth Systems Science PhD student.

  • August 21, 2022

    Freddy attended the 17th International Symposium on Phototrophic Prokaryotes in Liverpool, UK.

  • August 29, 2022

    Amanda attended the 2022 Joint Genome Institute annual user meeting.

  • July, 2022

    Devaki joined the Hypothesis Fund as a Scout. The Hypothesis Fund advances scientific knowledge by funding high-risk, high-reward ideas that would otherwise be un-pursued.

  • July 20, 2022

    Devaki presented a talk about her life and career path as a part of the “Living Histories” series.

  • June 28, 2022

    Devaki presented her research at the Carnegie Intern Seminar Series. See here for the full recording of the presentation.

  • July, 2022

    Devaki gave a talk at the IBPC Paris symposium.

  • June 21, 2022

    Thousands of small, novel genes predicted in global phage genomes, by the GP-SmORF Consortium of which Devaki is a member, was published in Cell Reports.

  • June 21, 2022

    The lab welcomed Alicia Sanoyca as a part of the Carnegie Summer Intern Program. Alicia is a rising junior at UCLA majoring in Microbiology, Immunology, and Molecular Genetics.

  • June 12, 2022

    Freddy and Harihara presented their research at the American Society for Microbiology conference. See their posters here.

  • June 16, 2022

    Devaki was a Keynote speaker at the 14th Workshop on Cyanobacteria.

  • June 2, 2022

    Devaki’s course, Partner with Trees, concluded. For images of the class see here.

  • June 7, 2022

    Vickie’s paper Retrotransposition facilitated the establishment of a primary plastid in the thecate amoeba Paulinella was published in the Proceedings of the National Academy of Sciences.

  • May 2, 2022

    Freddy’s paper Differential Phototactic Behavior of Closely Related Cyanobacterial Isolates from Yellowstone Hot Spring Biofilms was published by Applied and Environmental Microbiology.

  • May 24, 2022

    Freddy’s paper was a spotlight in Applied and Environmental Microbiology and made the cover!

  • March 3, 2022

    The lab participated in the Women in Stem NightLife at Cal Academy. Click here for more information.

  • April, 2022

    Devaki is teaching the course, ‘Partner with Trees’ in the Stanford biology department.

  • January, 2022

    The lab welcomed Ronan Esperanza, a Stanford undergraduate majoring in neuroscience, as a part of the Stanford bioBUDS program.

  • February 15, 2022

    Devaki presented “Dynamics, Diversity, and Defense in Phototrophic Communities” at the John Lawrence seminar series in biosciences.

  • November, 2021

    The lab welcomed post-baccalaureate research fellow Evan Paris.

  • November, 2021

    Freddy’s paper Phototaxis in Cyanobacteria: From Mutants to Models of Collective Behavior was published in mBio.

  • December, 2021

    The Environmental Molecular Sciences Laboratory (EMSL) awarded us a grant to study the relationship between Synechococcus sp. and Chloroflexus sp. within the microbial mat community of Yellowstone National Park hot springs.