Nathan Ahlgren
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Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation
G Rocap, FW Larimer, J Lamerdin, S Malfatti, P Chain, NA Ahlgren, ...
Nature 424 (6952), 1042-1047, 2003
VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data
J Ren, NA Ahlgren, YY Lu, JA Fuhrman, F Sun
Microbiome 5, 1-20, 2017
Identifying viruses from metagenomic data using deep learning
J Ren, K Song, C Deng, NA Ahlgren, JA Fuhrman, Y Li, X Xie, R Poplin, ...
Quantitative Biology 8 (1), 64-77, 2020
Alignment-free oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences
NA Ahlgren, J Ren, YY Lu, JA Fuhrman, F Sun
Nucleic acids research 45 (1), 39-53, 2017
Copper toxicity and cyanobacteria ecology in the Sargasso Sea
EL Mann, N Ahlgren, JW Moffett, SW Chisholm
Limnology and oceanography 47 (4), 976-988, 2002
Co-occurring Synechococcus ecotypes occupy four major oceanic regimes defined by temperature, macronutrients and iron
JA Sohm, NA Ahlgren, ZJ Thomson, C Williams, JW Moffett, MA Saito, ...
The ISME Journal 10 (2), 333-345, 2016
Culture Isolation and Culture-Independent Clone Libraries Reveal New Marine Synechococcus Ecotypes with Distinctive Light and N Physiologies
NA Ahlgren, G Rocap
Applied and Environmental Microbiology 72 (11), 7193-7204, 2006
Diversity and distribution of marine Synechococcus: multiple gene phylogenies for consensus classification and development of qPCR assays for sensitive measurement of clades in …
NA Ahlgren, G Rocap
Frontiers in Microbiology 3, 23758, 2012
Aryl-homoserine lactone quorum sensing in stem-nodulating photosynthetic bradyrhizobia
NA Ahlgren, CS Harwood, AL Schaefer, E Giraud, EP Greenberg
Proceedings of the National Academy of Sciences 108 (17), 7183-7188, 2011
Measurement of Prochlorococcus ecotypes using real‐time polymerase chain reaction reveals different abundances of genotypes with similar light physiologies
NA Ahlgren, G Rocap, SW Chisholm
Environmental microbiology 8 (3), 441-454, 2006
Discovery of several novel, widespread, and ecologically distinct marine Thaumarchaeota viruses that encode amoC nitrification genes
NA Ahlgren, CA Fuchsman, G Rocap, JA Fuhrman
The ISME journal 13 (3), 618-631, 2019
A network-based integrated framework for predicting virus–prokaryote interactions
W Wang, J Ren, K Tang, E Dart, JC Ignacio-Espinoza, JA Fuhrman, ...
NAR genomics and bioinformatics 2 (2), lqaa044, 2020
Long-term stability and Red Queen-like strain dynamics in marine viruses
JC Ignacio-Espinoza, NA Ahlgren, JA Fuhrman
Nature Microbiology 5 (2), 265-271, 2020
Genome and epigenome of a novel marine Thaumarchaeota strain suggest viral infection, phosphorothioation DNA modification and multiple restriction systems
NA Ahlgren, Y Chen, DM Needham, AE Parada, R Sachdeva, V Trinh, ...
Environmental microbiology 19 (6), 2434-2452, 2017
The unique trace metal and mixed layer conditions of the Costa Rica upwelling dome support a distinct and dense community of Synechococcus
NA Ahlgren, A Noble, AP Patton, K Roache‐Johnson, L Jackson, ...
Limnology and Oceanography 59 (6), 2166-2184, 2014
Multi‐year dynamics of fine‐scale marine cyanobacterial populations are more strongly explained by phage interactions than abiotic, bottom‐up factors
NA Ahlgren, JN Perelman, YC Yeh, JA Fuhrman
Environmental Microbiology 21 (8), 2948-2963, 2019
Prediction of virus-host infectious association by supervised learning methods
M Zhang, L Yang, J Ren, NA Ahlgren, JA Fuhrman, F Sun
BMC bioinformatics 18, 143-154, 2017
Genomic mosaicism underlies the adaptation of marine Synechococcus ecotypes to distinct oceanic iron niches
NA Ahlgren, BS Belisle, MD Lee
Environmental Microbiology 22 (5), 1801-1815, 2020
Optimizing de novo genome assembly from PCR-amplified metagenomes
S Roux, G Trubl, D Goudeau, N Nath, E Couradeau, NA Ahlgren, Y Zhan, ...
PeerJ 7, e6902, 2019
Marine Synechococcus isolates representing globally abundant genomic lineages demonstrate a unique evolutionary path of genome reduction without a …
MD Lee, NA Ahlgren, JD Kling, NG Walworth, G Rocap, MA Saito, ...
Environmental microbiology 21 (5), 1677-1686, 2019
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