Clarisse Majorel

Tropical coastal ecosystems harbor diverse microbes essential for biogeochemical cycling and serve as sentinels of environmental change. However, microbial community profiles remain largely undocumented across the Southwest Pacific. We investigated bacterial communities in coastal and lagoonal waters surrounding Nouméa, New Caledonia, an area under increasing urban pressure. Our objective was to determine whether spatial heterogeneity or seasonal variation primarily structures these communities and how anthropogenic activities shape microbial diversity. Forty‐two seawater samples were collected from seven sites spanning anthropized bays, mangrove estuaries, and offshore lagoon waters during hot and cold seasons. We found that spatial gradients explained significantly more variation in community structure ( R ² = 0.25) than seasonal changes ( R ² = 0.04), revealing distinct microbial signatures along the land‐to‐sea continuum. Coastal and mangrove sites harbored more copiotrophic taxa and elevated levels of predicted pathogen‐associated functional pathways, though these predictions are based on 16S rRNA data, and require validation with metagenomic or functional assays. Seasonal shifts mainly involved Cyanobacteria ( Synechococcus ↑, Prochlorococcus ↓ in warm season) and archaeal Marine Group II, reflecting temperature‐mediated niche partitioning. This study establishes the first spatial and seasonal microbial inventory for New Caledonian coastal ecosystems, suggesting associations between anthropogenic influence and microbial community health. Spatial dominance highlights the potential value of local management, while temperature sensitivity of key taxa underscores the importance of integrating microbial monitoring into coastal conservation and One Health frameworks.

The adaptation of marine sponges to their environment is often attributed to the specific composition of their bacterial communities. In this study, we assessed the bacterial microbiome of two dominant sponges, Rhabdastrella globostellata and Hyrtios erectus, living in the Bouraké lagoon (New Caledonia), where abiotic conditions reach extreme values of temperature, pH, and oxygen during low tide. Scuba divers collected sponge specimens and sediment and seawater samples at 2-3m depth. The bacterial communities were studied using 16S rRNA metabarcoding, and variations between the two sponges were compared using Principal Component Analyses (PCA) biplots. The phylum Chloroflexi and clade SAR202 appeared dominant in both sponge species reaching an average relative abundance of 41.2% and 53.2% in H. erectus and 53.2% and 78.7% in R. globostellata, respectively, while they were absent in sediments and seawater. Principal Component Analyses (PCA) explained 70.9% (phyla) and 86.6% (clade) showing that the bacterial community’s structure in both sponges is driven by Chloroflexi. This study is the first report of such a noteworthy relative abundance of Chloroflexi and SAR202 has been described in the microbiome of marine sponges. As these bacteria are known to play key roles in sponge nutrition and fitness, their high abundance strongly suggests an adaptive response to the extreme environmental conditions of the Bouraké lagoon.

The ability of marine filter feeders to accumulate metals could help monitor the health of the marine environment. This study examined the concentration of metallic trace elements (MTE) in two marine sponges, Rhabdastrella globostellata and Hyrtios erectus, from three sampling zones of the semi-enclosed Bouraké Lagoon (New Caledonia, South West Pacific). MTE in sponge tissues, seawater, and surrounding sediments was measured using inductively coupled plasma with optical emission spectroscopy. The variability in sponge MTE concentrations between species and sampling zones was visually discriminated using a principal component analysis (PCA). Sponges showed Fe, Mn, Cr, Ni, and Zn concentrations 2 to 10 times higher than in the surrounding sediments and seawater. Hyrtios erectus accumulated 3 to 20 times more MTE than R. globostellata, except for Zn. Average bioconcentration factors in sponge tissues were (in decreasing order) Zn > Ni > Mn > Fe > Cr relate to sediments and Fe > Ni > Mn > Cr > Zn relate to seawater. The PCA confirmed higher MTE concentrations in H. erectus compared to R. globostellata. Our results confirm that marine sponges can accumulate MTE to some extent and could be used as a tool for assessing metals contamination in lagoon ecosystems, particularly in New Caledonia, where 40% of the lagoon is classified as a UNESCO World Heritage Site.

The capacity of marine sponges to cope with environmental changes is often attributed to the specific composition of their bacterial communities. In this study, we assessed the bacterial microbiome of two dominant sponges, Rhabdastrella globostellata (Rg) and Hyrtios erectus (He), living in the Bouraké lagoon (New Caledonia), where abiotic conditions daily fluctuate according to the tide. Sponge specimens, sediment and seawater samples were collected at 2–3 m depth. The bacterial communities were assessed using 16S rRNA metabarcoding, and variations between the two sponges were compared using PCA biplots. Chloroflexi was the dominant phyla in both He and Rg with an average relative abundance of 41.2% and 53.2%, respectively, while it was absent in sediment and seawater. Among the phylum Chloroflexi, SAR202 clade was dominant in both sponges, reaching an average relative abundance of 53.2% (He) and 78.7% (Rg). Principal component analysis (PCA) was used to identify the main variables driving the bacterial community structure in both sponges. The results indicated that the bacterial community structure in both sponges was strongly associated with Chloroflexi (70.9% of the phyla variance) and SAR202 clade (86.6% of the clade variance). The high relative abundance of the phylum Chloroflexi and the SAR202 clade observed in this study is the highest reported so far in the literature in marine sponges. Such a high relative abundance of these bacteria could suggest their involvement in the well‐being of sponges in the extreme environmental conditions of Bouraké.

The remarkable capacity of plants to tolerate and accumulate tremendous amount of nickel is a complex adaptative trait that appeared independently in more than 700 species distributed in about fifty families. Nickel hyperaccumulation is thus proposed as a model to investigate the evolution of complex traits in plants. However, the mechanisms involved in nickel hyperaccumulation are still poorly understood in part because comparative transcriptomic analyses struggle to identify genes linked to this trait from a wide diversity of species. In this work, we have implemented a methodology based on the quantification of the expression of orthologous groups and phylogenetic comparative methods to identify genes which expression is correlated to the nickel hyperaccumulation trait. More precisely, we performed de novo transcriptome assembly and reads quantification for each species on its own transcriptome using available RNA-Seq datasets from 15 nickel hyperaccumulator and non-accumulator species. Assembled contigs were associated to orthologous groups built using proteomes predicted from completed plant genome sequences. We then analyzed the transcription profiles of 5953 orthologous groups from distant species using a phylogenetic ANOVA. We identified 31 orthologous groups with an expression shift associated with nickel hyperaccumulation. These orthologous groups correspond to genes that have been previously implicated in nickel accumulation, and to new candidates involved in this trait. We thus believe that this method can be successfully applied to identify genes linked to other complex traits from a wide diversity of species.

Summary: The Anthropocene epoch is associated with the spreading of metals in the environment increasing oxidative and genotoxic stress on organisms. Interestingly, c. 520 plant species growing on metalliferous soils acquired the capacity to accumulate and tolerate a tremendous amount of nickel in their shoots. The wide phylogenetic distribution of these species suggests that nickel hyperaccumulation evolved multiple times independently. However, the exact nature of these mechanisms and whether they have been recruited convergently in distant species is not known. To address these questions, we have developed a cross‐species RNA‐Seq approach combining differential gene expression analysis and cluster of orthologous group annotation to identify genes linked to nickel hyperaccumulation in distant plant families. Our analysis reveals candidate orthologous genes encoding convergent function involved in nickel hyperaccumulation, including the biosynthesis of specialized metabolites and cell wall organization. Our data also point out that the high expression of IREG/Ferroportin transporters recurrently emerged as a mechanism involved in nickel hyperaccumulation in plants. We further provide genetic evidence in the hyperaccumulator Noccaea caerulescens for the role of the NcIREG2 transporter in nickel sequestration in vacuoles. Our results provide molecular tools to better understand the mechanisms of nickel hyperaccumulation and study their evolution in plants.

The ecological restoration of nickel mining-degraded areas in New Caledonia is strongly limited by low availability of soil mineral nutrients, metal toxicity, and slow growth rates of native plant species. In order to improve plant growth for restoration programs, special attention was paid to interactions between plant and soil microorganisms. In this study, we evaluated the influence of inoculation with Curtobacterium citreum BE isolated from a New Caledonian ultramafic soil on arbuscular mycorrhizal symbiosis and growth of Tetraria comosa, an endemic sedge used in restoration programs. A greenhouse experiment on ultramafic substrate was conducted with an inoculum comprising two arbuscular mycorrhizal fungi (AMF) species isolated from New Caledonian ultramafic soils: Rhizophagus neocaledonicus and Claroideoglomus etunicatum. The effects on plant growth of the AMF and C. citreum BE inoculated separately were not significant, but their co-inoculation significantly enhanced the dry weight of T. comosa compared with the non-inoculated control. These differences were positively correlated with mycorrhizal colonization which was improved by C. citreum BE. Compared with the control, co-inoculated plants were characterized by better mineral nutrition, a higher Ca/Mg ratio, and lower metal translocation. However, for Ca/Mg ratio and metal translocation, there were no significant differences between the effects of AMF inoculation and co-inoculation.

The Anthropocene epoch is associated with the spreading of metals in the environment increasing oxidative and genotoxic stress on living organisms ^1,2 . Once regarded as a curiosity, plants hyperaccumulating metals are now envisioned as an opportunity to remediate metal contaminated soils. About 500 plant species adapted to metalliferous soils acquired the capacity to hyperaccumulate (>0.1% of dry weight) nickel in their shoot ³ . The phylogenetic distribution of these hyperaccumulators in 50 families suggest that this complex trait evolved multiple times independently from basic mechanisms involved in metal homeostasis. However, the exact nature of these mechanisms and whether they are shared between various lineages is not known. Here, using cross-species transcriptomic analyses in different plant families, we have identified convergent functions that may represent major nodes in the evolution of nickel hyperaccumulation. In particular, our data point out that constitutive high expression of IREG/Ferroportin transporters recurrently emerged as a mechanism involved in nickel hyperaccumulation.

Pregnancy-associated malaria (PAM) constitutes one of the most severe forms of malaria infection leading to fetal growth restriction and high risk of infant death. The severity of the pathology is largely attributed to the recruitment of monocytes and macrophages in the placenta which is evidenced by dysregulated inflammation found in placental blood. Importantly, CD36+ monocytes/macrophages are also thought to participate in the tight control of the pro- and anti-inflammatory responses following Plasmodium detection through elimination of apoptotic cells and malaria-infected erythrocytes, internalization and recycling of oxidized forms of low-density lipoprotein and collaboration with TLR2 in pro-inflammatory response. Interestingly, previous work demonstrated that CD36 expression was upregulated on inflammatory macrophages following stimulation of the Nrf2 transcription factor, whilst the PPARγ pathway was inhibited and non-functional in the same inflammatory conditions. This current study examined the possible role of Nrf2-driven gene expression, CD36 and Haem-Oxygenase-1 (HO-1), in PAM clinical outcomes. Clinical data and biological samples including peripheral blood mononuclear cells were collected from 27 women presenting PAM. Polychromatic flow cytometry was used to characterize innate immune cell subpopulations and quantify CD36 protein expression level on monocytes. mRNA levels of CD36, PPARγ, Nrf2 and HO-1 were determined by qPCR and related to clinical outcomes. Finally, the capacity of monocytes to modulate CD36 expression upon rosiglitazone or sulforaphane treatment, two respective PPARγ or Nrf2 activators, was also investigated. The CD36 receptor, mostly expressed by CD14+ circulating monocytes, statistically correlated with increased infant birth weights. Interestingly, mRNA levels of the transcription factor Nrf2 and the enzyme HO-1 also correlated with lower parasitaemia and increased infant birth weight, while PPARγ mRNA levels did not. Finally, monocytes isolated from low infant birth weight pregnant women were capable of up-regulating CD36 via the Nrf2 pathway ex vivo. Altogether these results suggest that Nrf2-driven CD36 and HO-1 expression on innate immune cells could contribute to a protective and detoxifying mechanism during PAM. More powered and mechanistical studies are however needed to strengthen the conclusions of this study.