RNA-seq dataset investigating salinity-driven responses of Vibrio aestuarianus subsp. francensis and their host Magallana gigas hemocytes during infection, 2023-2024
Salinity plays a crucial role in vibriosis development, causing higher mortality rate in oysters after a salinity drop.  This study investigates the impact of salinity on the bacterial pathogen Vibrio aestuarianus subsp. francensis and on host immune responses in the Pacific oyster Magallana gigas. Two complementary RNA-seq datasets were generated to capture salinity-driven transcriptional responses at both the pathogen and host levels. The first dataset (EpiVib-salinity, 2023) consists of transcriptomes of the V. aestuarianus subsp. francensis strain 12/016 grown in rich medium under contrasting salinity conditions (15, 22, 34, 40 g/L) and sampled at the late exponential growth phase, providing insights into bacterial physiological and regulatory responses to salinity. Total RNA was extracted at the late exponential phase and sequencing was performed as single-end reads (75 bp) on an Illumina NextSeq 550 platform (BioEnvironnement, Perpignan) after depletion of rRNAs using NEBNext Ultra II RNA Library Prep Kit. The second dataset (GoodVibe, 2024) comprises RNA-seq profiles of M. gigas haemocytes from oysters infected by cohabitation with V. aestuarianus subsp. francensis and subsequently exposed to three salinity levels (15, 30, and 40 psu), allowing the characterization of host immune responses during salinity shifts in an infection context. Oyster batches were produced in 2022 at the Ifremer facilities in La Tremblade (France) in two full-sib families of M. gigas named REF20 and REF22, which were selected for their contrasting susceptibility to Vibrio aestuarianus infection. Total RNA was extracted from oyster hemolymph, mRNA was enriched by oligo(dT) selection and sequencing was performed as paired-end (2 x 150 bp) on an Illumina NovaSeq platform (Integragen, Evry).
Salinity plays a crucial role in vibriosis development, causing higher mortality rate in oysters after a salinity drop.  This study investigates the impact of salinity on the bacterial pathogen Vibrio aestuarianus subsp. francensis and on host immune responses in the Pacific oyster Magallana gigas. Two complementary RNA-seq datasets were generated to capture salinity-driven transcriptional responses at both the pathogen and host levels. The first dataset (EpiVib-salinity, 2023) consists of transcriptomes of the V. aestuarianus subsp. francensis strain 12/016 grown in rich medium under contrasting salinity conditions (15, 22, 34, 40 g/L) and sampled at the late exponential growth phase, providing insights into bacterial physiological and regulatory responses to salinity. Total RNA was extracted at the late exponential phase and sequencing was performed as single-end reads (75 bp) on an Illumina NextSeq 550 platform (BioEnvironnement, Perpignan) after depletion of rRNAs using NEBNext Ultra II RNA Library Prep Kit. The second dataset (GoodVibe, 2024) comprises RNA-seq profiles of M. gigas haemocytes from oysters infected by cohabitation with V. aestuarianus subsp. francensis and subsequently exposed to three salinity levels (15, 30, and 40 psu), allowing the characterization of host immune responses during salinity shifts in an infection context. Oyster batches were produced in 2022 at the Ifremer facilities in La Tremblade (France) in two full-sib families of M. gigas named REF20 and REF22, which were selected for their contrasting susceptibility to Vibrio aestuarianus infection. Total RNA was extracted from oyster hemolymph, mRNA was enriched by oligo(dT) selection and sequencing was performed as paired-end (2 x 150 bp) on an Illumina NovaSeq platform (Integragen, Evry).