Publications

Dr. Julie LaRoche, Professor

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Recent Publications:

Bannon CC, Soto MA, Rowland E, Chen N, Gleason A, Devred E, LaRoche J, Bertrand EM. 2024. Production and utilization of pseudocobalamin in marine Synechococcus cultures and communities. Environmental Microbiology 26(10): e16701.  

Raes EJ, Myles S, MacNeil L, Wietz N, Bienhold C, Tait K, Somerfield PJ, Bissett A, van de Kamp J, Gasol JM, Massana R, Yeh Y-C, Fuhrman JA, LaRoche J. 2024. Seasonal patterns of microbial diversity across the world oceans. Limnology and Oceanography Letters 9(5): 512-523. 

LaRoche J, Archibald JM. 2024. Marine microbiology: How to evolve a nitrogen-fixing organelle. Current Biology 34(17): R826-R829. 

Bach LT, Ferderer AJ, LaRoche J, Schulz KG. 2024. Technical note: Ocean Alkalinity Enhancement Pelagic Impact Intercomparison Project (OAEPIIP). Biogeosciences 21(16): 3665-3676.

Rose SA, Robicheau BM, Tolman J, Fonseca-Batista D, Rowland E, Desai D, Ratten J-M, Kantor EJH, Comeau AM, Langille MGI, Jerlström-Hultqvist J, Devred E, Sarthou G, Bertrand EM, LaRoche J. 2024. Nitrogen fixation in the widely distributed marine γ-proteobacterial diazotroph Candidatus Thalassolituus haligoni. Science Advances 10(31): eadn1476.

MacNeil L, Costa M, LaRoche J. 2024. Glimpsing the 2020 spring bloom in the Strait of Georgia (Canada) with autonomous ferry-based sensors. Marine Ecology Progress Series 736: 181-187.

Tolman J, Desai D, LaRoche J. 2024. Rapid quantitative assessment of temporal and spatial variation in key functional genes of the microbial nitrogen cycle across multiple marine environments using the NanoString nCounter. Limnology and Oceanography: Methods 22(2): 103-117.

Haider D, Hall MW, LaRoche J, Beiko RG. 2024. Mock microbial community meta-analysis using different trimming of amplicon read lengths. Environmental Microbiology 26(1): e16566

Robicheau BM, Tolman J, Rose S, Desai D, LaRoche J. 2023. Marine nitrogen-fixers in the Canadian Arctic Gateway are dominated by biogeographically distinct non-cyanobacterial communities. FEMS Microbiology Ecology 99(12): fiad122.

Robicheau BM, Tolman J, Desai D, LaRoche J. 2023. Microevolutionary patterns in ecotypes of the symbiotic cyanobacterium UCYN-A revealed from a Northwest Atlantic coastal time series. Science Advances 9(39): eadh9768.

Colombo M, LaRoche J, Desai D, Li J, Maldonado MT. 2023. Control of particulate manganese (Mn) cycling in halocline Arctic Ocean waters by putative Mn‐oxidizing bacterial dynamics. Liminology and Oceanography 68(9): 2070-2087.

Hendricks A, Mackie CM, Luy E, Sonnichsen C, Smith J, Grundke I, Tavasoli M, Furlong A, Beiko RG, LaRoche J, Sieben V. 2023. Compact and automated eDNA sampler for in situ monitoring of marine environments. Scientific Reports 13: 1-13

Soto MA, Desai D, Bannon C, LaRoche J, Bertrand EM. 2023. Cobalamin producers and prokaryotic consumers in the Northwest Atlantic. Environmental Microbiology 25(7): 1300-1313. 

Behnke J, Cai Y, Gu H, LaRoche J. 2023. Short-term response to iron resupply in an iron-limited open ocean diatom reveals rapid decay of iron-responsive transcripts. PLOS ONE 18(1): e0280827. 

Landou E, Lazar B, LaRoche J, Fennel I, Berman‐Frank I. 2023. Contribution of photic and aphotic N₂ fixation to production in an oligotrophic sea. Liminology and Oceanography 68(3): 692-708.

Raes EJ, Tolman J, Desai D, Ratten J-M, Zorz J, Robicheau BM, Haider D, LaRoche J. 2022. Seasonal bacterial niche structures and chemolithoautotrophic ecotypes in a North Atlantic fjord. Scientific Reports 12(15335): 1-13.

MacNeil L, Desai DK, Costa M, LaRoche J. 2022. Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf. Scientific Reports 12(13078): 1-11.

Robicheau BM, Tolman J, Bertrand EM, LaRoche J. 2022. Highly-resolved interannual phytoplankton community dynamics of the coastal Northwest Atlantic. ISME Communications 2:1-12. 

Duerschlag J, Mohr W, Ferdelman TG, LaRoche J, Desai D, Croot PL, Voß D, Zielinski O, Lavik G, Littmann S, Martínez-Pérez C, Tschitschko B, Bartlau N, Osterholz H, Dittmar T, Kuypers MMM. 2022. Niche partitioning by photosynthetic plankton as a driver of CO2-fixation across the oligotrophic South Pacific Subtropical Ocean. ISME J 16(2):465-476.

LaRoche J and Robicheau BM. 2022. The Pelagic Light-Dependent Microbiome. In: Stal LJ, Cretoiu MS (eds) The Marine Microbiome, 2nd Edition. Springer, Cham. pp. 395-423.  

Smith P, Beaumont L, Bernacchi CJ, Byrne M, Cheung W, Conant RT, Cotrufo F, Feng X, Janssens I, Jones H, Kirschbaum MUF, Kobayashi K, LaRoche J, Luo Y, McKechnie A, Penuelas J, Piao S, Robinson S, Sage RF, Sugget DJ, Thackeray SJ, Way D, Long SP. 2022. Essential Outcomes for COP26. Global Change Biology 28(1):1-3.

Chen X, Wei W, Xiao X, Wallace D, Hu C, Zhang L, Batt J, Liu J, Gonsior M, Zhang Y, LaRoche J, Hill P, Xu D, Wang J, Jiao N, Zhang R. 2022. Heterogeneous viral contribution to dissolved organic matter processing in a long-term macrocosm experiment. Environment International 158:106950.

MacNeil L, Missan S, Luo J, Trappenberg T, LaRoche J. 2021. Plankton classification with high-throughput submersible holographic microscopy and transfer learning. BMC Ecology and Evolution 21(1):1-11.

Sebastian H, Robicheau BM, Rakshit S, Tolman J, Algar CK, LaRoche J, Wallace DWR. 2021. Physical mixing in coastal waters controls and decouples nitrification via biomass dilution. Proceedings of the National Academy of Sciences 118(18).

Jiao N, et al. 2021. Correcting a major error in assessing organic carbon pollution in natural waters. Science Advances 7(16): eabc7318

Behnke J, Cohen AM, LaRoche J. 2021. N-linked glycosylation enzymes in the diatom Thalassiosira oceanica exhibit a diel cycle in transcript abundance and favor for NXT-type sites. Scientific reports 11(1):1-14

Bôto ML, Magalhães C, Perdigão R, Alexandrino DAM, Fernandes JP, Bernabeu AM, Ramos S, Carvalho MF, Semedo M, LaRoche J, Almeida CMR, Mucha AP. 2021. Harnessing the potential of native microbial communities for bioremediation of oil spills in the Iberian Peninsula NW coast. Frontiers in Microbiology 12:879.

Roy AS, Woehle C, LaRoche J. 2020. The Transfer of the Ferredoxin Gene From the Chloroplast to the Nuclear Genome Is Ancient Within the Paraphyletic Genus Thalassiosira. Frontiers in Microbiology 11:2389.

Behnke J, LaRoche J. 2020. Iron uptake proteins in algae and the role of Iron Starvation-Induced Proteins (ISIPs). European Journal of Phycology 55(3):339-360.

Haas S, Desai DK, LaRoche J, Pawlowicz R, Wallace DWR. 2019. Geomicrobiology of the carbon, nitrogen adn sulphur cycles in Powell Lake: a permanently stratified water column containing ancient seawater. Enviromental Microbiology 21(10):3927-3952 

Willis C, Desai D, LaRoche J. 2019. Influence of 16S rRNA variable region on perceived diversity of marine microbial communities of the Northern North Atlantic. FEMS Microbiology Letters : fnz152

Fonseca-Batista D, Li X, Riou V, Michotey V, Deman F, Fripiat F, Guasco S, Brion N, Lemaitre N, Tonnard M, Gallinari M, Planquette H, Planchon F, Sarthou G, Elskens M, LaRoche J, Chou L, Dehairs F. 2019. Evidence of high N₂ fixation rates in the temperate northeast Atlantic. Biogeosciences. 16(5):999-1017

Zorz J, Willis C, Comeau A, Langille MGT, Johnson C, Li WKW, LaRoche J.2019. Drivers of Regional Bacterial Community Structure and Diversity in the Northwest Atlantic Ocean. Fronteirs in Microbiology. 10. DOI: 10.3389/fmicb.2019.00281

Michl S, Beyer M, Ratten J, Hasler M, LaRoche J, Schulz C. 2019. A diet-change modulates the previously established bacterial gut community in juvenile brown trout (Salmo trutta). Scientific Reports. 9(1). DOI: 10.1038/s41598-019-38800-7

Moore RM, Grefe I, Zorz J, Shan S, Thompson K, Ratten J, LaRoche J. 2018. On the Relationship Between Hydrogen Saturation in the Tropical Atlantic Ocean and Nitrogen Fixation by the Symbiotic Diazotroph UCYN‐A. Journal of Geophysical Research: Oceans 123(4):2353-2362

Michl SC, Ratten J, Beyer M, Hasler M, LaRoche J, Schulz, C. 2017. The malleable gut microbiome of juvenile rainbow trout (Oncorhynchus mykiss): Diet-dependent shifts of bacterial community structures. PLoS ONE (12):e0177735

Jickells TD, Buitenhuis E, Altieri K, Baker AR, Capone D, Duce RA, Dentener F, Fennel K, Kanakidou M, LaRoche J, Lee K, Liss P, Middelburg JJ, Moore JK, Okin G, Oschlies A, Sarin M, Seitzinger S, Sharples J, Singh A, Suntharalingam P, Uematsu M, Zamora LM. 2017. A reevaluation of the magnitude and impacts of anthropogenic atmospheric nitrogen inputs on the ocean. Global Biogeochemical Cycles (31):289-305

Sargent EC, Hitchcock A, Johansson SA, Langlois R, Moore CM, LaRoche J, Poulton AJ, Bibby TS. 2016. Evidence for polyploidy in the globally important diazotroph Trichodesmium. FEMS Microbiology Letters (363):fnw244

Martinez-Perez C, Mohr W, Löscher CR, Dekaezemacker J, Littmann S, Yilmaz P, Lehnen N, Fuchs BM, Lavik G, Schmitz RA, LaRoche J, Kuypers MMM. 2016. The small unicellular diazotrophic symbiont, UCYN-A, is a key player in the marine nitrogen cycle. Nature Microbiology (1):16163

Löscher CR, LaRoche J, Schmitz RA. 2015. Underestimation of Marine Dinitrogen Fixation: A Novel Method and Novel Diazotrophic Habitats Biological Nitrogen Fixation. 891-896A

Kopf A, Bicak M, Kottmann R, Schnetzer J, Kostadinov I, Lehmann K, ...(157 authors) 2015. The ocean sampling day consortium. GigaScience 4(1):1-5

Langlois R, Großkopf T, Mills M, Takeda S, LaRoche J. 2015. Widespread Distribution and Expression of Gamma A (UMB), an Uncultured, Diazotrophic, γ-Proteobacterial nifH Phylotype. PLoS One 

Ratten JM, LaRoche J, Desai DK, Shelley RU, Landing WM, Boyle E, Cutter GA, Langlois RJ. 2015. Sources of iron and phosphate affect the distribution of diazotrophs in the North Atlantic. Deep Sea Research Part II: Topical Studies in Oceanography 116:332-341.

Wallace DW, de Young B, Iverson S, LaRoche J, Whoriskey F, Lewis M,...Rae A. 2014. A Canadian contribution to an integrated Atlantic ocean observing system (IAOOS). In Oceans-St. John's, (pp. 1-10). IEEE.

Krupke A, Mohr W, LaRoche J, Fuchs BM, Amann RI, Kuypers MM. 2014. The effect of nutrients on carbon and nitrogen fixation by the UCYN-A–haptophyte symbiosis. The ISME journal.

Perner M, Gonnella G, Kurtz S, LaRoche J. 2014. Handling temperature bursts reaching 464° C: different microbial strategies in the Sisters Peak hydrothermal chimney. Appl.Environ. Microbiol, AEM. 01460-141.

Loescher CR, Großkopf T, Desai FD, Gill D, Schunck H, Croot PL, Schlosser C, Neulinger S, Pinnow N, Lavik G, Kuypers MMM, LaRoche J and Schmit RA. 2014. Facets of diazotrophy in the oxygen minimum zone waters off Peru.  

Krupke A, Musat N, Laroche J, Mohr W, Fuchs BM, Amann RI, Kuypers MM, Foster RA. 2013. In situ identification and N₂ and C fixation rates of uncultivated cyanobacteria populations. Syst Appl Microbiol. 36(4):259-71. 

Moore CM, Mills MM, Arrigo KR, Berman-Frank I, Bopp L, Boyd PW, Galbraith ED, Geider RJ, Guieu C, Jaccard SL, Jickells TD, LaRoche J, Lenton TM, Mahowald NM, Marañón E, Marinov I, Moore JK, Nakatsuka T, Oschlies A, Saito MA, Thingstad TF, Tsuda A, Ulloa O. 2013. Processes and patterns of oceanic nutrient limitation. Nature Geoscience.

Mohr W, Vagner T, Kuypers MMM, Ackermann M, LaRoche J. 2013. Resolution of Conflicting Signals at the Single-Cell Level in the Regulation of Cyanobacterial Photosynthesis and Nitrogen Fixation. Plos One 8(6).

Desai DK, Schunck H, Loeser JW, LaRoche J. 2013. Fragment recruitment on metabolic pathways: comparative metabolic profiling of metagenomes and metatranscriptomes. Bioinformatics 29(6): 790-791.

Roy A-S, Gibbons SM, Schunck H, Owens S, Caporaso JG, Sperling M, Nissimov JI, Romac S, Bittner L, Muehling M, Riebesell U, LaRoche J, Gilbert JA. 2013. Ocean acidification shows negligible impacts on high-latitude bacterial community structure in coastal pelagic mesocosms. Biogeosciences 10(1): 555-566.

Schunck H, Lavik G, Desai DK, GroSSkopf T, Kalvelage T, Loscher CR, Paulmier A, Contreras S, Siegel H, Holtappels M, Rosenstiel P, Schilhabel MB, Graco M, Schmitz RA, Kuypers MMM, Laroche J. 2013. Giant Hydrogen Sulfide Plume in the Oxygen Minimum Zone off Peru Supports Chemolithoautotrophy. PloS one 8(8):e68661.

Desai DK, Desai FD, LaRoche J. 2012. Factors influencing the diversity of iron uptake systems in aquatic microorganisms. Front. Microbio. 3:362. 

Großkopf T, Mohr W, Baustian T, Schunck H, Gill1 D, Kuypers MMK, Lavik G, Schmitz RA, Wallace DWR, LaRoche J. 2012. Doubling of marine dinitrogen-fixation rates based on direct measurements. Nature 488, 361–364. 

Großkopf T, LaRoche J. 2012. Direct and indirect costs of dinitrogen fixation in Crocosphaera watsonii WH8501 and possible implications for the nitrogen cycle. Front. Microbio. 

Lommer M, Specht M, Roy A-S, Kraemer L, Andreson R, Gutowska MA, Wolf J, Bergner SV, Schilhabel MB, Klostermeier UC, Beiko RG, Rosenstiel P, Hippler M, LaRoche J. 2012. Genome and low-iron response of an oceanic diatom adapted to chronic iron limitation. Genome Biology 13:R66

Halm H, Lam P, Ferdelman TG, Lavik G, Dittmar T, LaRoche J, D'Hondt S. 2012. Heterotrophic organisms dominate nitrogen fixation in the South Pacific Gyre. ISME J 6(6):1238-1249 

Loescher CR, Kock A, Koenneke M, LaRoche J, Bange HW, Schmitz RA. 2011. Production of oceanic nitrous oxide by ammonia-oxidizing archaea. PLoS ONE Biogeosciences, 9, 2419–2429, 2012 

Mohr W, Großkopf T, Wallace DWR, LaRoche J. 2010. Methodological Underestimation of Oceanic Nitrogen Fixation Rates. PLoS ONE 5: e12583.