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Circadian clocks, internal mechanisms that generate 24-hour rhythms, play a crucial role in coordinating biological events with day-night cycles. In light-deprived environments such as caves, species, particularly isolated obligatory troglobites, may exhibit evolutionary adaptations in biological rhythms due to light exposure. To explore rhythm expression in these settings, we conducted a comprehensive literature review on invertebrate chronobiology in global subterranean ecosystems, analyzing 44 selected studies out of over 480 identified as of September 2023. These studies revealed significant taxonomic diversity, primarily among terrestrial species like Coleoptera, with research concentrated in the United States, Italy, France, Australia, and Brazil, and a notable gap in African records. Troglobite species displayed a higher incidence of aperiodic behavior, while troglophiles showed a robust association with rhythm expression. Locomotor activity was the most studied aspect (>60%). However, approximately 4% of studies lacked information on periodicity or rhythm asynchrony, and limited research under constant light conditions hindered definitive conclusions. This review underscores the need to expand chronobiological research globally, encompassing diverse geographical regions and taxa, to deepen our understanding of biological rhythms in subterranean species. Such insights are crucial for preserving the resilience of subsurface ecosystems facing threats like climate change and habitat loss.

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Copy number variation is a common contributor to phenotypic diversity, yet its involvement in ecological adaptation is not easily discerned. Instances of parallelly evolving populations of the same species in a similar environment marked by strong selective pressures present opportunities to study the role of copy number variants (CNVs) in adaptation. By identifying CNVs that repeatedly occur in multiple populations of the derived ecotype and are not (or are rarely) present in the populations of the ancestral ecotype, the association of such CNVs with adaptation to the novel environment can be inferred. We used this paradigm to identify CNVs associated with recurrent adaptation of the Mexican tetra (Astyanax mexicanus) to cave environment. Using a read-depth approach, we detected CNVs from previously re-sequenced genomes of 44 individuals belonging to two ancestral surfaces and three derived cave populations. We identified 102 genes and 292 genomic regions that repeatedly diverge in copy number between the two ecotypes and occupy 0.8% of the reference genome. Functional analysis revealed their association with processes previously recognized to be relevant for adaptation, such as vision, immunity, oxygen consumption, metabolism, and neural function and we propose that these variants have been selected for in the cave or surface waters. The majority of the ecotype-divergent CNVs are multiallelic and display copy number increases in cavefish compared to surface fish. Our findings suggest that multiallelic CNVs - including gene duplications - and divergence in copy number provide a fast route to produce novel phenotypes associated with adaptation to subterranean life.

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Background: Telomeres are non-coding DNA repeats at the chromosome ends and their shortening is considered one of the major causes of aging. However, they also serve as a biomarker of environmental exposures and their length and attrition is affected by various stressors. In this study, we examined the average telomere length in Astyanax mexicanus, a species that has both surface-dwelling and cave-adapted populations. The cave morph descended from surface ancestors and adapted to a markedly different environment characterized by specific biotic and abiotic stressors, many of which are known to affect telomere length. Our objective was to explore whether telomere length differs between the two morphs and whether it serves as a biological marker of aging or correlates with the diverse environments the morphs are exposed to. Methods: We compared telomere length and shortening between laboratory-reared Pachón cavefish and Rio Choy surface fish of A. mexicanus across different tissues and ages. Results: Astyanax mexicanus surface fish exhibited longer average telomere length compared to cavefish. In addition, we did not observe telomere attrition in either cave or surface form as a result of aging in adults up to 9 years old, suggesting that efficient mechanisms prevent telomere-mediated senescence in laboratory stocks of this species, at least within this time frame. Our results suggest that telomere length in Astyanax may be considered a biomarker of environmental exposures. Cavefish may have evolved shorter and energetically less costly telomeres due to the absence of potential stressors known to affect surface species, such as predator pressure and ultra-violet radiation. This study provides the first insights into telomere dynamics in Astyanax morphs and suggests that shorter telomeres may have evolved as an adaptation to caves.

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The Cuban macaw Ara tricolor (Bechstein, 1811) is an extinct species of large parrots. Its historical distribution and ecology are poorly understood. To date, only three late Quaternary paleontological and one archeozoological (17th-18th centuries) finds of the species have been described from central Cuba. A new (fourth) fossil find of the Cuban macaw is described and is a fragmentary carpometacarpus from Upper Pleistocene layers of the El Abrón Cave in the Pinar del Río province. The find provides the first documented evidence of the species from the western part of Cuba. The associated fauna indicates that the Cuban macaw lived in mosaic, semi-open marshy landscapes, which were probably similar to those in the vicinity of Ciénaga de Zapata in modern times.

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Animals living in caves are of broad relevance to evolutionary biologists interested in understanding the mechanisms underpinning convergent evolution. In the Eastern Andes of Colombia, populations from at least two distinct clades of Trichomycterus catfishes (Siluriformes) independently colonized cave environments and converged in phenotype by losing their eyes and pigmentation. We are pursuing several research questions using genomics to understand the evolutionary forces and molecular mechanisms responsible for repeated morphological changes in this system. As a foundation for such studies, here we describe a diploid, chromosome-scale, long-read reference genome for Trichomycterus rosablanca, a blind, depigmented species endemic to the karstic system of the department of Santander. The nuclear genome comprises 1 Gb in 27 chromosomes, with a 40.0× HiFi long-read genome coverage having an N50 scaffold of 40.4 Mb and N50 contig of 13.1 Mb, with 96.9% (Eukaryota) and 95.4% (Actinopterygii) universal single-copy orthologs (BUSCO). This assembly provides the first reference genome for the speciose genus Trichomycterus, serving as a key resource for research on the genomics of phenotypic evolution.

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The Amazon is renowned worldwide for its biological significance, but it also harbors substantial mineral reserves. Among these, the ferruginous geosystems of the region are critical for iron ore extraction, accounting for 10% of Brazil's export revenue. Additionally, this region holds a significant speleological heritage with more than 1,000 caves. However, cave conservation efforts are often in conflict with land use, necessitating mediation through environmental regulations. While conservation decisions typically consider only the caves' characteristics, such an approach fails to account for the interactions among cave communities and their surrounding landscape. This poses a challenge to reserve design for cave conservation purposes. To address this issue, we assessed the predictors that influence the similarity among cave communities, suggesting the use of this parameter as a proxy for subterranean connectivity. Applying graph theory, we proposed a tool to aid in the selection of priority caves for conservation purposes. Our study involved the sampling of invertebrates in 69 iron ore caves and analyzing 28 environmental variables related to these subterranean habitats and adjacent landscape. Our analysis revealed that landscape and habitat characteristics are more important than geographical distance in determining patterns of similarity among caves. Our graph approach highlighted densely interconnected clusters based on similarity. However, specific caves stood out for harboring exclusive fauna and/or exhibiting habitat specificity, making them unique in the study area. Thus, we recommend prioritizing cave clusters for conservation, assembling both singular caves and others that influence them. It is crucial to note that protocols for the protection of subterranean biodiversity must consider measures that encompass both the caves and the surrounding landscape. Our methodology provides insights into the connectivity among caves, identifies existing groups, highlights singular (or unique) cavities that require preservation, and recognizes those influencing these unique habitats. This methodological advancement is crucial for the development of better conservation policies for the speleological heritage in areas under constant economic pressure.

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Subterranean organisms provide excellent opportunities to investigate morphological evolution, especially of sensory organs and structures and their processing areas in the central nervous system. We describe the gross morphology of the brain and some cephalic sensory organs (olfactory organ, eye, semicircular canals of the inner ear) and the swim bladder (a non-sensory accessory structure) of subterranean species of pencil catfishes of the genus Ituglanis Costa and Bockmann, 1993 (Siluriformes, Trichomycteridae) and compare them with an epigean species of the genus, Ituglanis goya Datovo, Aquino and Langeani, 2016. We compared qualitatively the size of the different brain regions and sense organs of the subterranean species with those of the epigean one, searching for modifications possibly associated with living in the subterranean environment. Our findings suggest that species of Ituglanis exhibit sensory characteristics that are preadaptive for the subterranean life, as only slight modifications were observed in the brains and sense organs of the subterranean species of the genus when compared with the epigean one. Because most subterranean fish species belong to lineages putatively preadapted for subterranean life, our results, discussed in the context of available information on the brain and sense organs of other subterranean species, help identify general trends for the evolution of the brain and sensory organs of subterranean fishes in general.

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Tumors of the Meckel cave are very rare lesions, especially if they are malignant. We report the case of a patient who presented with a breast metastasis in the Meckel cave and a clinical presentation similar to that of a fifth nerve schwannoma.

Os tumores do cavo de Meckel são lesões muito raras, especialmente se forem malignos. Relatamos o caso de uma paciente que apresentou metástase mamária no cavo de Meckel e quadro clínico semelhante a schwannoma do quinto nervo.

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Background: Tethysbaena are small peracarid crustaceans inhabiting extreme environments such as subterranean lakes and thermal springs, represented by endemic species found around the ancient Tethys, including the Mediterranean, Arabian Sea, Mid-East Atlantic, and the Caribbean Sea. Two Tethysbaena species are known from the Levant: T. relicta, found along the Dead Sea-Jordan Rift Valley, and T. ophelicola, found in the Ayyalon cave complex in the Israeli coastal plain, both belonging to the same species-group based on morphological cladistics. Along the biospeleological research of the Levantine subterranean fauna, three biogeographic hypotheses determining their origins were proposed: (1) Pliocenic transgression, (2) Mid-late Miocenic transgression, and (3) The Ophel Paradigm, according to which these are inhabitants of a chemosynthetic biome as old as the Cambrian. Methods: Tethysbaena specimens of the two Levantine species were collected from subterranean groundwaters. We used the mitochondrial cytochrome c oxidase subunit I (COI) gene and the nuclear ribosomal 28S (28S rRNA) gene to establish the phylogeny of the Levantine Tethysbaena species, and applied a molecular clock approach for inferring their divergence times. Results: Contrary to the morphological cladistic-based classification, we found that T. relicta shares an ancestor with Tethysbaena species from Oman and the Dominican Republic, whereas the circum-Mediterranean species (including T. ophelicola) share another ancestor. The mean age of the node linking T. relicta from the Dead Sea-Jordan Rift Valley and Tethysbaena from Oman was 20.13 MYA. The mean estimate for the divergence of T. ophelicola from the Mediterranean Tethysbaena clade dated to 9.46 MYA. Conclusions: Our results indicate a two-stage colonization of Tethysbaena in the Levant: a late Oligocene transgression, through a marine gulf extending from the Arabian Sea, leading to the colonization of T. relicta in the Dead Sea-Jordan Rift Valley, whereas T. ophelicola, originating from the Mesogean ancestor, inhabited anchialine caves in the coastal plain of Israel during the Mid-Miocene.

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A new species of Tamanduamyia (Diptera, Mythicomyiidae, Mythicomyiinae) is described from Serra do Ramalho, Carinhanha, Bahia, Brazil, Tamanduamyia bichuettae sp. nov. The type series was actively collected with falcon tubes when resting at the entrance of a limestone cave in the rock exudations. The species is described and illustrated in detail, including the male terminalia and female spermathecae. This is the first record of a micro-bee fly species in the state of Bahia (Brazil) and may also represent the first recorded association of a Mythicomyiidae species with cave environments.

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Abstract The present work describes 11 new species of the genus Trichorhina from Brazilian caves in the states of Bahia, Mato Grosso do Sul, Minas Gerais, Pará, and São Paulo. Moreover, the distribution of T. tomentosa has been expanded to include the states of Mato Grosso and Minas Gerais. Additionally, a distribution map and a key for all Brazilian species of Trichorhina, including epigean ones, are provided.

Resumo O presente trabalho descreve 11 novas espécies do gênero Trichorhina de cavernas brasileiras nos estados da Bahia, Mato Grosso do Sul, Minas Gerais, Pará e São Paulo. Além disso, a distribuição de T. tomentosa foi ampliada para incluir os estados de Mato Grosso e Minas Gerais. Adicionalmente, são fornecidos um mapa de distribuição e uma chave para todas as espécies brasileiras de Trichorhina, incluindo as epígeas.

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The clastic sediments that accumulate in cave settings can be an important storage reservoir for organic carbon. This study reports on grain size, total organic carbon (TOC) concentrations, and total organic carbon:total organic nitrogen (TOC:TON) ratios measured in sediments from two caves in Puerto Rico. El Tallonal Cave (TAL) is a small cave with a flowing stream; the sediments in TAL were collected from a deposit that is being actively eroded. Clara Cave (CAM) is an upper level of the Río Camuy Cave System; the sediments from CAM were newly deposited by an internal river that rose in response to Hurricane Maria. Sediments collected from both caves were poorly sorted and contained no apparent stratigraphic correlation. CAM sediments contained a larger range in TOC concentrations but were overall lower than TOC in the TAL sediments. In TAL, the TOC concentrations were higher in sediments collected from below the erosional terrace. TOC:TON ratios from sediments at both caves were highly variable, highlighting the heterogeneous deposition and storage of organic matter. Despite the observed variation, TOC concentrations in both cave systems could cause retardation of organic contaminants by up to two orders-of-magnitude, implying that deposited sediments influence the fate of organic contaminants in the groundwater; therefore, cave sediments could facilitate long term storage of organic carbon and associated contaminants.

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Here we describe the new species Pseudoporatia kananciue Iniesta, Bouzan, Souza & Brescovit, n. sp., widespread in the Amazonian ferruginous landscape of the state of Pará, Brazil. The species differs from its only congener P. perplexa Golovatch, 1999 by the presence of 19 body rings in adults (vs 20 body rings), the position of the porosteles on the paraterga, and the morphology of the gonopods. Notes on its ecology and comments on the diversity of millipedes in the region of Serra dos Carajás, state of Pará, Brazil, are also provided. Ajouts à la faune de mille-pattes d'un paysage ferrugineux amazonien: une nouvelle espèce de Pseudoporatia Golovatch, 1999 répandue dans les affleurements rocheux (Diplopoda, Polydesmida, Pyrgodesmidae). Nous décrivons ici la nouvelle espèce Pseudoporatia kananciue Iniesta, Bouzan, Souza & Brescovit, n. sp., répandue dans le paysage ferrugineux amazonien de l'État de Pará, Brésil. L'espèce diffère de son seul congénère P. perplexa Golovatch, 1999 par la présence de 19 anneaux corporels chez les adultes (contre 20 anneaux corporels), la position des porostèles sur les paraterga et la morphologie des gonopodes. Des notes sur son écologie et des commentaires sur la diversité des mille-pattes dans la région de Serra dos Carajás, État de Pará, Brésil, sont également fournis.

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In order to provide a reassessment of the Neotropical genus Pseudonannolene Silvestri, 1895, a cladistic analysis, biogeographic analysis, and taxonomic review were conducted in the present work. For the cladistic approach, 91 morphological characters were scored for 53 terminals as the ingroup and 10 as the outgroup. Three synapomorphies support the monophyly of the genus: presence of a longitudinal suture on the promentum, penial bases partially fused, and the internal branch of the gonopods surrounding the telopodite; and two homoplastic transformations: the lateral lobe of the collum densely striated and setae present up to the apical portion of the prefemoral process on the first leg-pair of males. The genus Pseudonannolene is recovered as sister-group of Epinannolene Brölemann, 1903 (Pseudonannoleninae). A total of 226 occurrence points were recorded for Pseudonannolene, with the majority of records from the Chacoan subregion, composed by Araucaria Forest, Atlantic, and Parana Forest provinces. The biogeographical searches using the Geographically explicit Event Model recovered two biogeographic reconstructions (cost of 79 000), with the vicariance events occurring more frequently in the deep clades, whereas sympatry and points of sympatry occurred in more inclusive clades. The first reconstruction recovered four vicariances, 13 sympatries, 4 points of sympatry, and 21 founder events, and the second reconstruction recovered four vicariances, 12–13 sympatries, 4–5 points of sympatry, and 21 founder events. The genus Pseudonannolene comprises 56 species, including 8 new species herein described: P. alata sp. nov., P. aurea sp. nov., P. bucculenta sp. nov., P. curvata sp. nov., P. granulata sp. nov., P. insularis sp. nov., P. morettii sp. nov., and P. nicolau sp. nov.; P. brevis Silvestri, 1902 and P. rugosetta Silvestri, 1897 are regarded as species inquirendae; a neotype of P. alegrensis Silvestri, 1897 is here proposed with male described for the first time. The following taxa are synonymized: P. canastra Gallo & Bichuette, 2020 and P. saguassu Iniesta & Ferreira, 2013 with P. ambuatinga Iniesta & Ferreira, 2013; P. marconii Iniesta & Ferreira, 2013 with P. longicornis (Porat, 1888); P. chaimowiczi Fontanetti, 1996, P. gogo Iniesta & Ferreira, 2013, P. rosineii Iniesta & Ferreira, 2014, P. taboa Iniesta & Ferreira, 2014, and P. longissima Iniesta & Ferreira, 2014 with P. microzoporus Mauriès, 1987; P. tricolor gracilis Brölemann, 1902 and P. tricolor rugosus Schubart, 1945 with P. tricolor Brölemann, 1902; P. auguralis Silvestri, 1902 with P. rocana Silvestri, 1902; and P. abbreviata Silvestri, 1902 with P. typica Silvestri, 1895. P. inops Brölemann, 1929 is proposed here as new status from P. bovei inops. A dichotomous identification key is presented to facilitate the species identification.

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Microbial communities inhabiting caves in quartz-rich rocks are still underexplored, despite their possible role in the silica cycle. The world's longest orthoquartzite cave, Imawarì Yeuta, represents a perfect arena for the investigation of the interactions between microorganisms and silica in non-thermal environments due to the presence of extraordinary amounts of amorphous silica speleothems of different kinds. In this work, the microbial diversity of Imawarì Yeuta was dissected by analyzing nineteen samples collected from different locations representative of different silica amorphization phases and types of samples. Specifically, we investigated the major ecological patterns in cave biodiversity, specific taxa enrichment, and the main ecological clusters through co-occurrence network analysis. Water content greatly contributed to the microbial communities' composition and structures in the cave leading to the sample clustering into three groups DRY, WET, and WATER. Each of these groups was enriched in members of Actinobacteriota, Acidobacteriota, and Gammaproteobacteria, respectively. Alpha diversity analysis showed the highest value of diversity and richness for the WET samples, while the DRY group had the lowest. This was accompanied by the presence of correlation patterns including either orders belonging to various phyla from WET samples or orders belonging to the Actinobacteriota and Firmicutes phyla from DRY group samples. The phylogenetic analysis of the dominant species in WET and DRY samples showed that Acidobacteriota and Actinobacteriota strains were affiliated with uncultured bacteria retrieved from various oligotrophic and silica/quartz-rich environments, not only associated with subterranean sites. Our results suggest that the water content greatly contributes to shaping the microbial diversity within a subterranean quartzite environment. Further, the phylogenetic affiliation between Imawarì Yeuta dominant microbes and reference strains retrieved from both surface and subsurface silica- and/or CO2/CO-rich environments, underlines the selective pressure applied by quartz as rock substrate. Oligotrophy probably in association with the geochemistry of silica/quartz low pH buffering activity and alternative energy sources led to the colonization of specific silica-associated microorganisms. This study provides clues for a better comprehension of the poorly known microbial life in subsurface and surface quartz-dominated environments.

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Pressures from anthropogenic disturbances have triggered a wealth of studies focusing on the assessment and mitigation of the negative impacts of these disturbances on inter and intraspecific ecological interactions, including bats and bat flies in their roosts. The heterogeneity of research methods employed for these studies and the scientific imbalance between countries may constrain advances and the consolidation of the knowledge on this subject. We reviewed the literature regarding bat and bat-ectoparasite interactions in roosts assessing global research trends and patterns of author collaborative work to be able to identify key questions for future studies and potential initiatives to improve the knowledge on this subject. Current information available has mostly come from the Americas and is predominantly focused on the recognition and description of parasite-host interactions between bats and bat flies. Our findings suggest the value of increasing collaboration for future research, as several countries with largely diverse environments and high organismal richness are disconnected from the countries that produce the most publications in this area, and/or have low records of publications. These regions are in the Global South, mostly in South American and African countries. We suggest that more collaborative networks may increase scientific production in the area, and that investing in local research development and enhancing partnerships for publications may strengthen the field. These research programs and collaborations are key for the development of conservation strategies for bats and bat flies, for their roosts, and for understanding bat and bat-ectoparasite interactions.

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Sandflies are vector species of Leishmania, among many other pathogens, with a global distribution and a variety of ecological niches. Previous samplings have found that karstic formations (i.e., caves, grottos, and folds formed by the erosion of limestone) serve as a natural habitat to sandfly species. The majority of samplings of cave sandfly diversity have occurred in Brazil and to date none have studied the species composition in a cave in the Northern Andes. We collected sandflies in the Cave "Los Guácharos", in the state of Antioquia, Colombia. The sampling was carried out during two consecutive nights in September 2019. CDC-type light traps were installed inside the cavern and in other surrounding karst systems (caves, rock-breaks, and folds). In total, we identified 17 species of sandfly from the cave and surrounding karst systems, including a new record for Colombia (Bichromomyia olmeca), and provide the first karstic reports for four other species (Lutzomyia gomezi, Lutzomyia hartmanni, Pintomyia ovallesi, and Psychodopygus panamensis). We then used the results of our survey and published literature to test two hypotheses. First, that sandfly diversity in Neotropical caves is richest nearer to the equator, and second that there is a phylogenetic signal of karstic habitat use in sandflies. Counter to our predictions, we found no evidence that diversity follows a latitudinal gradient. Further, we find no evidence of a phylogenetic signal of karstic habitat use, instead finding that the use of caves likely evolved multiple times across several genera. Our results highlight the importance of a wide sampling to understand the natural habitat of sandflies and other disease vectors.

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Brazilian caves, one of the many tourist attractions of the country, may act as a shelter for insects, such as sand flies (Diptera: Psychodidae), natural hosts of various microorganisms including parasites of the genus Leishmania Ross, 1903. In the last decades, with the increasing global need for sustainable development, ecotourism has emerged as one of the major activities in Brazil. However, the constant monitoring in environmentally protected areas is not often carried out, endangering visitors and professionals, especially due to the occurrence of zoonoses. Several sand fly species have already been recorded in Brazilian caves, drawing attention to the possibility of Leishmania transmission at this ecotope. Indeed, this current systematic review summarizes the fauna of cave-dwelling sand flies in Brazil, focusing on their biological behaviour and the occurrence of potential vectors of Leishmania parasites.

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Caves are special environments that harbour an incredible diversity of life, including fungal species. Brazilian caves have been demonstrated to be biodiversity hotspots for known and unknown fungal species. We investigated the richness of culturable fungi in a tropical cave in Brazil by isolating these microorganisms from the sediment and air. The fungal abundance of colony-forming units (CFUs) was 3 178 in sediment and 526 in air. We used morphological features and phylogenetic analyses of actin (actA), calmodulin (cmdA), internal transcribed spacer regions and intervening 5.8S rRNA (ITS), large subunit (LSU) rDNA, RNA polymerase II second largest subunit (rpb2), translation elongation factor 1-alpha (tef1), and ß-tubulin (tub2) genes to identify these isolates. Forty-one species belonging to 17 genera of Ascomycota and two of Basidiomycota were identified, and the genus Aspergillus was most commonly observed in the cave (13 taxa). Twenty-four species were found in sediment (16 exclusives) and 25 species were found in air (17 exclusives). In this study, we introduced a new genus (Pseudolecanicillium gen. nov.) in the family Cordycipitaceae and six new species (14 % of the total taxa identified) of fungal isolates obtained from sediment and air: Aspergillus lebretii sp. nov., Malbranchea cavernosa sp. nov., Pseudohumicola cecavii sp. nov., Pseudolecanicillium caatingaense sp. nov., Talaromyces cavernicola sp. nov., and Tritirachium brasiliense sp. nov. In addition, we built a checklist of the fungal taxa reported from Brazilian caves. Our results highlight the contribution of Brazilian caves to the estimation of national and global fungal diversity. Citation: Alves VCS, Lira RA, Lima JMS, Barbosa RN, Bento DM, Barbier E, Bernard E, Souza-Motta CM, Bezerra JDP (2022). Unravelling the fungal darkness in a tropical cave: richness and the description of one new genus and six new species. Fungal Systematics and Evolution 10: 139-167. doi: 10.3114/fuse.2022.10.06.

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Microbial communities have been explored in various terrestrial subsurface ecosystems, showing metabolic potentials that could generate noteworthy morphological and molecular biosignatures. Recent advancements in bioinformatic tools have allowed for descriptions of novel and yet-to-be cultivated microbial lineages in different ecosystems due to the genome reconstruction approach from metagenomic data. Using shotgun metagenomic data, we obtained metagenome-assembled genomes related to cultivated and yet-to-be cultivated prokaryotic lineages from a silica and iron-rich cave (Monte Cristo) in Minas Gerais State, Brazil. The Monte Cristo Cave has been shown to possess a high diversity of genes involved with different biogeochemical cycles, including reductive and oxidative pathways related to carbon, sulfur, nitrogen, and iron. Three genomes were selected for pangenomic analysis, assigned as Truepera sp., Ca. Methylomirabilis sp., and Ca. Koribacter sp. based on their lifestyles (radiation resistance, anaerobic methane oxidation, and potential iron oxidation). These bacteria exhibit genes involved with multiple DNA repair strategies, starvation, and stress response. Because these groups have few reference genomes deposited in databases, our study adds important genomic information about these lineages. The combination of techniques applied in this study allowed us to unveil the potential relationships between microbial genomes and their ecological processes with the cave mineralogy and highlight the lineages involved with anaerobic methane oxidation, iron oxidation, and radiation resistance as functional models for the search for extant life-forms outside our planet in silica- and iron-rich environments and potentially on Mars.

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