JBPC Publications 2021

Schauberger C, Glud RN, Hausmann B, Trouche B, Maignien L, Poulain J, Wincker P, Arnaud-Haond S, Wenzhöfer F, Thamdrup B. Microbial community structure in hadal sediments: high similarity along trench axes and strong changes along redox gradients. ISME J. 2021 Dec;15(12):3455-3467. doi: 10.1038/s41396-021-01021-w. Epub 2021 Jun 8. PMID: 34103697; PMCID: PMC8629969.

Amaral-Zettler LA. Latitudinal Diversity Gradients (LDGs) and macroalgal microbiomes: A chimera of biotic and abiotic effects? J Phycol. 2021 Dec;57(6):1679-1680. doi: 10.1111/jpy.13208. PMID: 34875101.

Thamdrup B, Schauberger C, Larsen M, Trouche B, Maignien L, Arnaud-Haond S, Wenzhöfer F, Glud RN. Anammox bacteria drive fixed nitrogen loss in hadal trench sediments. Proc Natl Acad Sci U S A. 2021 Nov 16;118(46):e2104529118. doi: 10.1073/pnas.2104529118. PMID: 34764222; PMCID: PMC8609620.

Trouche B, Brandt MI, Belser C, Orejas C, Pesant S, Poulain J, Wincker P, Auguet JC, Arnaud-Haond S, Maignien L. Diversity and Biogeography of Bathyal and Abyssal Seafloor Bacteria and Archaea Along a Mediterranean-Atlantic Gradient. Front Microbiol. 2021 Nov 1;12:702016. doi: 10.3389/fmicb.2021.702016. PMID: 34790173; PMCID: PMC8591283.

Perera D, McLean A, Morillo-López V, Cloutier-Leblanc K, Almeida E, Cabana K, Mark Welch J, Ramsey M. Mechanisms underlying interactions between two abundant oral commensal bacteria. ISME J. 2021 Nov 3. doi: 10.1038/s41396-021-01141-3. Epub ahead of print. PMID: 34732850.

Craig RJ, Yushenova IA, Rodriguez F, Arkhipova IR. An Ancient Clade of Penelope-Like Retroelements with Permuted Domains Is Present in the Green Lineage and Protists, and Dominates Many Invertebrate Genomes. Mol Biol Evol. 2021 Oct 27;38(11):5005-5020. doi: 10.1093/molbev/msab225. PMID: 34320655; PMCID: PMC8557442.

Raposeiro PM, Hernández A, Pla-Rabes S, Gonçalves V, Bao R, Sáez A, Shanahan T, Benavente M, de Boer EJ, Richter N, Gordon V, Marques H, Sousa PM, Souto M, Matias MG, Aguiar N, Pereira C, Ritter C, Rubio MJ, Salcedo M, Vázquez-Loureiro D, Margalef O, Amaral-Zettler LA, Costa AC, Huang Y, van Leeuwen JFN, Masqué P, Prego R, Ruiz-Fernández AC, Sanchez-Cabeza JA, Trigo R, Giralt S. Climate change facilitated the early colonization of the Azores Archipelago during medieval times. Proc Natl Acad Sci U S A. 2021 Oct 12;118(41):e2108236118. doi: 10.1073/pnas.2108236118. PMID: 34607952; PMCID: PMC8522277.

Mika K, Okamoto AS, Shubin NH, Mark Welch DB. Bacterial community dynamics during embryonic development of the little skate (Leucoraja erinacea). Anim Microbiome. 2021 Oct 13;3(1):72. doi: 10.1186/s42523-021-00136-x. PMID: 34645528; PMCID: PMC8513177.

Yu EM, Yoshinaga T, Jalufka FL, Ehsan H, Mark Welch DB, Kaneko G. The complex evolution of the metazoan HSP70 gene family. Sci Rep. 2021 Sep 7;11(1):17794. doi: 10.1038/s41598-021-97192-9. PMID: 34493758; PMCID: PMC8423806.

Stelzer CP, Blommaert J, Waldvogel AM, Pichler M, Hecox-Lea B, Mark Welch DB. Comparative analysis reveals within-population genome size variation in a rotifer is driven by large genomic elements with highly abundant satellite DNA repeat elements. BMC Biol. 2021 Sep 16;19(1):206. doi: 10.1186/s12915-021-01134-w. PMID: 34530817; PMCID: PMC8447722.

Miyoshi J, Miyoshi S, Delmont TO, Cham C, Lee STM, Sakatani A, Yang K, Shan Y, Kennedy M, Kiefl E, Yousef M, Crosson S, Sogin M, Antonopoulos DA, Eren AM, Leone V, Chang EB. Early-Life Microbial Restitution Reduces Colitis Risk Promoted by Antibiotic-Induced Gut Dysbiosis in Interleukin 10^-/- Mice. Gastroenterology. 2021 Sep;161(3):940-952.e15. doi: 10.1053/j.gastro.2021.05.054. Epub 2021 Jun 7. PMID: 34111469.

Dibner RR, Weaver AM, Brock MT, Custer GF, Morrison HG, Maignien L, Weinig C. Time outweighs the effect of host developmental stage on microbial community composition. FEMS Microbiol Ecol. 2021 Aug 18;97(9):fiab102. doi: 10.1093/femsec/fiab102. PMID: 34259857.

Amaral-Zettler LA, Ballerini T, Zettler ER, Asbun AA, Adame A, Casotti R, Dumontet B, Donnarumma V, Engelmann JC, Frère L, Mansui J, Philippon M, Pietrelli L, Sighicelli M. Diversity and predicted inter- and intra-domain interactions in the Mediterranean Plastisphere. Environ Pollut. 2021 Oct 1;286:117439. doi: 10.1016/j.envpol.2021.117439. Epub 2021 Jun 2. PMID: 34438479.

Nguyen QP, Karagas MR, Madan JC, Dade E, Palys TJ, Morrison HG, Pathmasiri WW, McRitche S, Sumner SJ, Frost HR, Hoen AG. Associations between the gut microbiome and metabolome in early life. BMC Microbiol. 2021 Aug 28;21(1):238. doi: 10.1186/s12866-021-02282-3. PMID: 34454437; PMCID: PMC8400760.

Hunter-Cevera KR, Hamilton BR, Neubert MG, Sosik HM. Seasonal environmental variability drives microdiversity within a coastal Synechococcus population. Environ Microbiol. 2021 Jul 9. doi: 10.1111/1462-2920.15666. Epub 2021 Jul 26. PMID: 34245073; PMCID: PMC8456951.

Kivenson V, Paul BG, Valentine DL. An Ecological Basis for Dual Genetic Code Expansion in Marine Deltaproteobacteria. Front Microbiol. 2021 Jul 14;12:680620. doi: 10.3389/fmicb.2021.680620. PMID: 34335502; PMCID: PMC8318568.

Alain K, Vince E, Courtine D, Maignien L, Zeng X, Shao Z, Jebbar M. Thermococcus henrietii sp. nov., a novel extreme thermophilic and piezophilic sulfur-reducing archaeon isolated from a deep-sea hydrothermal chimney. Int J Syst Evol Microbiol. 2021 Jul;71(7). doi: 10.1099/ijsem.0.004895. PMID: 34270399.

Courtine D, Vince E, Maignien L, Philippon X, Gayet N, Shao Z, Alain K. Thermococcus camini sp. nov., a hyperthermophilic and piezophilic archaeon isolated from a deep-sea hydrothermal vent at the Mid-Atlantic Ridge. Int J Syst Evol Microbiol. 2021 Jul;71(7). doi: 10.1099/ijsem.0.004853. PMID: 34236955.

Capistrant-Fossa KA, Morrison HG, Engelen AH, Quigley CTC, Morozov A, Serrão EA, Brodie J, Gachon CMM, Badis Y, Johnson LE, Hoarau G, Abreu MH, Tester PA, Stearns LA, Brawley SH. The microbiome of the habitat-forming brown alga Fucus vesiculosus (Phaeophyceae) has similar cross-atlantic structure that reflects past and present drivers¹. J Phycol. 2021 Jun 27. doi: 10.1111/jpy.13194. Online ahead of print. PMID: 34176151

Schauberger C, Glud RN, Hausmann B, Trouche B, Maignien L, Poulain J, Wincker P, Arnaud-Haond S, Wenzhöfer F, Thamdrup B. Microbial community structure in hadal sediments: high similarity along trench axes and strong changes along redox gradients. ISME J. 2021 Jun 8. doi: 10.1038/s41396-021-01021-w. Online ahead of print. PMID: 34103697

Lebeaux RM, Coker MO, Dade EF, Palys TJ, Morrison HG, Ross BD, Baker ER, Karagas MR, Madan JC, Hoen AG.The infant gut resistome is associated with E. coli and early-life exposures. BMC Microbiol. 2021 Jul 2;21(1):201. doi: 10.1186/s12866-021-02129-x. PMID: 34215179 PMCID: PMC8252198

Amaral-Zettler LA, Zettler ER, Mincer TJ, Klaassen MA, Gallager SM. Biofouling impacts on polyethylene density and sinking in coastal waters: A macro/micro tipping point? Water Res. 2021 May 26;201:117289. doi: 10.1016/j.watres.2021.117289. Online ahead of print. PMID: 34102596

Roux S, Paul BG, Bagby SC, Nayfach S, Allen MA, Attwood G, Cavicchioli R, Chistoserdova L, Gruninger RJ, Hallam SJ, Hernandez ME, Hess M, Liu WT, McAllister TA, O’Malley MA, Peng X, Rich VI, Saleska SR, Eloe-Fadrosh EA. Ecology and molecular targets of hypermutation in the global microbiome. Nat Commun12, 3076 (2021). doi: 10.1038/s41467-021-23402-7. PMID: 34031405

Coker MO, Laue HE, Hoen AG, Hilliard M, Dade E, Li Z, Palys T, Morrison HG, Baker E, Karagas MR and Madan JC. Infant Feeding Alters the Longitudinal Impact of Birth Mode on the Development of the Gut Microbiota in the First Year of Life. Front. Microbiol. 07 April 2021; 12:642197. doi: 10.3389/fmicb.2021.642197. PMID: 33897650; PMCID: PMC8059768

Klasek SA, Brock MT, Morrison HG, Weinig C and Maignien L. Soil Microsite Outweighs Cultivar Genotype Contribution to Brassica Rhizobacterial Community Structure. Front. Microbiol. 07 April 2021; 12:645784. doi: 10.3389/fmicb.2021.645784. PMID: 33897658; PMCID: PMC8058099

Pieper C, Magalhães Loureiro C, Law KL, Amaral-Zettler LA, Quintino V, Rodrigues AM, Ventura MA, Martins A. Marine litter footprint in the Azores Islands: A climatological perspective. Sci Total Environ. 2021 Mar 20;761:143310. doi: 10.1016/j.scitotenv.2020.143310. Epub 2020 Nov 4. PMID: 33183812.

Schön I, Rodriguez F, Dunn M, Martens K, Shribak M, Arkhipova IR. A Survey of Transposon Landscapes in the Putative Ancient Asexual Ostracod Darwinula stevensoni. Genes (Basel). 2021 Mar 11;12(3):401. doi: 10.3390/genes12030401. PMID: 33799706; PMCID: PMC7998251.

Nowell RW, Wilson CG, Almeida P, Schiffer PH, Fontaneto D, Becks L, Rodriguez F, Arkhipova IR, Barraclough TG. Evolutionary dynamics of transposable elements in bdelloid rotifers. Elife. 2021 Feb 5;10:e63194. doi: 10.7554/eLife.63194. PMID: 33543711; PMCID: PMC7943196.

Moyle MW, Barnes KM, Kuchroo M, Gonopolskiy A, Duncan LH, Sengupta T, Shao L, Guo M, Santella A, Christensen R, Kumar A, Wu Y, Moon KR, Wolf G, Krishnaswamy S, Bao Z, Shroff H, Mohler WA, Colón-Ramos DA. Structural and developmental principles of neuropil assembly in C. elegans. Nature. 2021 Mar;591(7848):99-104. doi: 10.1038/s41586-020-03169-5. Epub 2021 Feb 24. PubMed PMID: 33627875.

Wang, Y, Wegener, G, Ruff, SE, & Wang, F. Methyl/alkyl-coenzyme M reductase-based anaerobic alkane oxidation in archaea. Environ Microbiology. 2021 Feb; 23(2):530-541. doi: 10.1111/1462-2920.15057. PMID: 32367670

Gribble KE. Brachionus rotifers as a model for investigating dietary and metabolic regulators of aging. Nutr Healthy Aging. 2021 Jan 20;6(1):1-15. doi: 10.3233/NHA-200104. PMID: 33709041; PMCID: PMC7903245.

Eren AM, Kiefl E, Shaiber A, Veseli I, Miller SE, Schechter MS, Fink I, Pan JN, Yousef M, Fogarty EC, Trigodet F, Watson AR, Esen ÖC, Moore RM, Clayssen Q, Lee MD, Kivenson V, Graham ED, Merrill BD, Karkman A, Blankenberg D, Eppley JM, Sjödin A, Scott JJ, Vázquez-Campos X, McKay LJ, McDaniel EA, Stevens SLR, Anderson RE, Fuessel J, Fernandez-Guerra A, Maignien L, Delmont TO, Willis AD. Community-led, integrated, reproducible multi-omics with anvi’o. Nat Microbiol. 2021 Jan;6(1):3-6. doi: 10.1038/s41564-020-00834-3. PMID: 33349678.

Vogel FA, Schlundt C, Stote RE, Ratto JA, Amaral-Zettler LA. Comparative Genomics of Marine Bacteria from a Historically Defined Plastic Biodegradation Consortium with the Capacity to Biodegrade Polyhydroxyalkanoates. Microorganisms. 2021 Jan 16;9(1):186. doi: 10.3390/microorganisms9010186. PMID: 33467086; PMCID: PMC7830162.

Zhao S, Zettler ER, Amaral-Zettler LA, Mincer TJ. Microbial carrying capacity and carbon biomass of plastic marine debris. ISME J. 2021 Jan;15(1):67-77. doi: 10.1038/s41396-020-00756-2. Epub 2020 Sep 2. PMID: 32879460; PMCID: PMC7852875.