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A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.
Pages
About me
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Posts
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Blog Post number 4
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Blog Post number 1
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portfolio
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publications
A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes
Published in Microbiome, 2020
Metagenome-assembled genomes of sponge symbionts off the coast of Guam.
Recommended citation: Podell, S., Blanton, J.M., Oliver, A. et al. A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes. Microbiome (2020).
Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom
Published in Scientific Reports, 2021
The genome assembly and gene annotation of an industially-relevant diatom.
Recommended citation: Oliver, A., Podell, S., Pinowska, A. et al. Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom. Scientific Reports (2021).
Phenotypic and transcriptional response of Daphnia pulicaria to the combined effects of temperature and predation
Published in PLoS ONE, 2022
Life history changes and differential gene expression of water fleas in response to high temperatures and presence of predators.
Recommended citation: Oliver, A., Cavalheri, H.B., Lima, T.G. et al. Phenotypic and transcriptional response of Daphnia pulicaria to the combined effects of temperature and predation. PLoS ONE (2022).
Herbivorous fish microbiome adaptations to sulfated dietary polysaccharides
Published in Applied and Environmental Microbiology, 2023
Metagenomic exploration of the enzymes within herbivorous fish guts.
Recommended citation: Podell, S., Oliver, A., Wegley Kelly, L. et al. Herbivorous fish microbiome adaptations to sulfated dietary polysaccharides. Applied and Environmental Microbiology (2023).
Enrichable consortia of microbial symbionts degrade macroalgal polysaccharides in Kyphosus fish
Published in mBio, 2024
Genomic investigations of gut symbionts that unlock algal nutrients for fish.
Recommended citation: Oliver, A., Podell, S., Wegley Kelly, L. et al. Enrichable consortia of microbial symbionts degrade macroalgal polysaccharides in Kyphosus fish. mBio (2024).
Atmospheric methane consumption in arid ecosystems acts as a reverse chimney and is accelerated by plant-methanotroph biomes
Published in ISME, 2025
The microbiome of dryland plants in the Anza-Borrego Desert pulls methane from the air more effectively than unvegetated soils.
Recommended citation: Delherbe, N.A., Gomez, O., Plominsky, A.M. et al. Atmospheric methane consumption in arid ecosystems acts as a reverse chimney and is accelerated by plant-methanotroph biomes. ISME (2025).
Engineering the green algae Chlamydomonas incerta for recombinant protein production
Published in PLoS One, 2025
Expanding the genetic manipulation tools of model organism Chlamydomonas reinhardtii to work with related, faster growing strains.
Recommended citation: Kalisa, K., Espirito Santo, E., Diaz, C.J. et al. Engineering the green algae Chlamydomonas incerta for recombinant protein production. PLoS One (2025).
Description of a novel extremophile green algae, Chlamydomonas pacifica, and its potential as a biotechnology host
Published in Algal Research, 2025
A new green algae thrives in hot, salty, and high pH environments, but also grows well in the lab.
Recommended citation: Molino, J.V.D., Oliver, A., Sethuram, H. et al. Description of a novel extremophile green algae, Chlamydomonas pacifica, and its potential as a biotechnology host. Algal Research (2025).
Microbiome data management in action workshop: Atlanta, GA, USA, June 12–13, 2024
Published in Environmental Microbiome, 2025
Scientists, journal editors, and government funding agencies came together to discuss standardization efforts for microbiome data.
Recommended citation: Kelliher, J.M., Aljumaah, M., Bordenstein, S.R. et al. Microbiome data management in action workshop: Atlanta, GA, USA, June 12–13, 2024. Environmental Microbiome (2025).
Identification and overexpression of endogenous transcription factors to enhance lipid accumulation in the biotechnologically relevant species Chlamydomonas pacifica
Published in Algal Research, 2025
Increasing lipid output and shifting to biodiesel-friendly lipid profiles in a commercially-grown microalgae strain.
Recommended citation: Gupta, A., Oliver, A., Molino, J.V.D. et al. Identification and overexpression of endogenous transcription factors to enhance lipid accumulation in the biotechnologically relevant species Chlamydomonas pacifica. Algal Research (2025).
talks
teaching
Mathematics for Algorithms and Systems
Undergraduate course, UC San Diego, Jacobs School of Engineering, 2020
Four quarters as a tutor-reader under Distinguished Prof. Andrew B. Kahng and Prof. Miles Jones.
Discrete Mathematics
Undergraduate course, UC San Diego, Jacobs School of Engineering, 2020
One quarter as a tutor-reader under Prof. Miles Jones.
Design and Analysis of Algorithms
Undergraduate course, UC San Diego, Jacobs School of Engineering, 2021
One quarter as a tutor-reader under Prof. Miles Jones.