Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome
Ocean microbial communities strongly influence the biogeochemistry, food webs, and climate of our planet. Despite recent advances in understanding their taxonomic and genomic compositions, little is known about how their transcriptomes vary globally. Here, we present a dataset of 187 metatranscriptomes and 370 metagenomes from 126 globally distributed sampling stations and establish a resource of 47 million genes to study community-level transcriptomes across depth layers from pole-to-pole. We examine gene expression changes and community turnover as the underlying mechanisms shaping community transcriptomes along these axes of environmental variation and show how their individual contributions differ for multiple biogeochemically relevant processes. Furthermore, we find the relative contribution of gene expression changes to be significantly lower in polar than in non-polar waters and hypothesize that in polar regions, alterations in community activity in response to ocean warming will be driven more strongly by changes in organismal composition than by gene regulatory mechanisms.
Table S1. Pairs of GCs/OGs Linked through Co-expression, Related to STAR Methods. Includes GCs-GCs and GCs-OGs pairs with co-expression Pearson’s r greater than 0.86 (which corresponds to...
Salazar Guillem, Paoli Lucas, Alberti Adriana, Huerta-Cepas Jaime, Cuenca Miguelangel, Field Christopher M., Coelho Luis Pedro, Cruaud Corinne, Engelen Stefan, Gregory Ann C., Labadie Karine, Marec Claudie, Pelletier Eric, Royo-Llonch Marta, Roux Simon, Sánchez Pablo, Uehara Hideya, Zayed Ahmed A., Zeller Georg, Carmichael Margaux, Dimier Céline, Ferland Joannie, Kandels Stefanie, Picheral Marc, Pisarev Sergey, Poulain Julie, Acinas Silvia G., Babin Marcel, Bork Peer, Bowler Chris, de Vargas Colomban, Guidi Lionel, Hingamp Pascal, Iudicone Daniele, Karp-Boss Lee, Karsenti Eric, Ogata Hiroyuki, Pesant Stephane, Speich Sabrina, Sullivan Matthew B., Wincker Patrick, Sunagawa Shinichi (2019). Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome. Cell. 179 (5). 1068-1083.e21 (38p.). https://doi.org/10.1016/j.cell.2019.10.014, https://archimer.ifremer.fr/doc/00591/70339/
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Obiol, Aleix, López-Escardó, David, Salomaki, Eric D., Wiśniewska, Monika M., Forn, Irene, Sà, Elisabet, Vaqué, Dolors, Kolísko, Martin, Massana, Ramon (2024). Additional file 2 of Gene expression dynamics of natural assemblages of heterotrophic flagellates during bacterivory. figshare. https://doi.org/10.6084/m9.figshare.26597324
Obiol, Aleix, López-Escardó, David, Salomaki, Eric D., Wiśniewska, Monika M., Forn, Irene, Sà, Elisabet, Vaqué, Dolors, Kolísko, Martin, Massana, Ramon (2024). Additional file 3 of Gene expression dynamics of natural assemblages of heterotrophic flagellates during bacterivory. figshare. https://doi.org/10.6084/m9.figshare.26597327
Obiol, Aleix, López-Escardó, David, Salomaki, Eric D., Wiśniewska, Monika M., Forn, Irene, Sà, Elisabet, Vaqué, Dolors, Kolísko, Martin, Massana, Ramon (2024). Additional file 3 of Gene expression dynamics of natural assemblages of heterotrophic flagellates during bacterivory. figshare. https://doi.org/10.6084/m9.figshare.26597327.v1