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Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples.
Parada AE, Needham DM, Fuhrman JA. Parada AE, et al. Environ Microbiol. 2016 May;18(5):1403-14. doi: 10.1111/1462-2920.13023. Epub 2015 Oct 14. Environ Microbiol. 2016. PMID: 26271760
Short-term observations of marine bacterial and viral communities: patterns, connections and resilience.
Needham DM, Chow CE, Cram JA, Sachdeva R, Parada A, Fuhrman JA. Needham DM, et al. Among authors: parada a. ISME J. 2013 Jul;7(7):1274-85. doi: 10.1038/ismej.2013.19. Epub 2013 Feb 28. ISME J. 2013. PMID: 23446831 Free PMC article.
Temporal variability and coherence of euphotic zone bacterial communities over a decade in the Southern California Bight.
Chow CE, Sachdeva R, Cram JA, Steele JA, Needham DM, Patel A, Parada AE, Fuhrman JA. Chow CE, et al. Among authors: parada ae. ISME J. 2013 Dec;7(12):2259-73. doi: 10.1038/ismej.2013.122. Epub 2013 Jul 18. ISME J. 2013. PMID: 23864126 Free PMC article.
Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years.
Cram JA, Chow CE, Sachdeva R, Needham DM, Parada AE, Steele JA, Fuhrman JA. Cram JA, et al. Among authors: parada ae. ISME J. 2015 Mar;9(3):563-80. doi: 10.1038/ismej.2014.153. Epub 2014 Sep 9. ISME J. 2015. PMID: 25203836 Free PMC article.
Improved Bacterial 16S rRNA Gene (V4 and V4-5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys.
Walters W, Hyde ER, Berg-Lyons D, Ackermann G, Humphrey G, Parada A, Gilbert JA, Jansson JK, Caporaso JG, Fuhrman JA, Apprill A, Knight R. Walters W, et al. Among authors: parada a. mSystems. 2015 Dec 22;1(1):e00009-15. doi: 10.1128/mSystems.00009-15. eCollection 2016 Jan-Feb. mSystems. 2015. PMID: 27822518 Free PMC article.
Genome and epigenome of a novel marine Thaumarchaeota strain suggest viral infection, phosphorothioation DNA modification and multiple restriction systems.
Ahlgren NA, Chen Y, Needham DM, Parada AE, Sachdeva R, Trinh V, Chen T, Fuhrman JA. Ahlgren NA, et al. Among authors: parada ae. Environ Microbiol. 2017 Jun;19(6):2434-2452. doi: 10.1111/1462-2920.13768. Epub 2017 May 26. Environ Microbiol. 2017. PMID: 28418097
Marine archaeal dynamics and interactions with the microbial community over 5 years from surface to seafloor.
Parada AE, Fuhrman JA. Parada AE, et al. ISME J. 2017 Nov;11(11):2510-2525. doi: 10.1038/ismej.2017.104. Epub 2017 Jul 21. ISME J. 2017. PMID: 28731479 Free PMC article.
Short-term dynamics and interactions of marine protist communities during the spring-summer transition.
Berdjeb L, Parada A, Needham DM, Fuhrman JA. Berdjeb L, et al. Among authors: parada a. ISME J. 2018 Aug;12(8):1907-1917. doi: 10.1038/s41396-018-0097-x. Epub 2018 Mar 29. ISME J. 2018. PMID: 29599520 Free PMC article.
Characterizing Chemoautotrophy and Heterotrophy in Marine Archaea and Bacteria With Single-Cell Multi-isotope NanoSIP.
Dekas AE, Parada AE, Mayali X, Fuhrman JA, Wollard J, Weber PK, Pett-Ridge J. Dekas AE, et al. Among authors: parada ae. Front Microbiol. 2019 Dec 17;10:2682. doi: 10.3389/fmicb.2019.02682. eCollection 2019. Front Microbiol. 2019. PMID: 31920997 Free PMC article.
High-quality genome sequences of uncultured microbes by assembly of read clouds.
Bishara A, Moss EL, Kolmogorov M, Parada AE, Weng Z, Sidow A, Dekas AE, Batzoglou S, Bhatt AS. Bishara A, et al. Among authors: parada ae. Nat Biotechnol. 2018 Oct 15:10.1038/nbt.4266. doi: 10.1038/nbt.4266. Online ahead of print. Nat Biotechnol. 2018. PMID: 30320765 Free PMC article.
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