Advenella alkanexedens sp. nov., an alkane-degrading bacterium isolated from biogas slurry samples

Development of bioanodes rich in exoelectrogenic bacteria using iron-rich palaeomarine sediment inoculum

Microbial Fuel Cells (MFC) convert energy stored in chemicals into electrical energy thanks to exoelectrogenic microorganisms who also play a crucial role in geochemical cycles in their natural environment, including that of iron. In this study, we investigated paleomarine sediments as inoculum for bioanode development in MFCs. These sediments were formed under anoxic conditions ca. 113 million years ago and are rich in clay minerals, organic matter, and iron. The marlstone inoculum was incubated in the anolyte of an MFC using acetate as the added electron donor and ferricyanide as the electron acceptor in the catholyte. After seven weeks of incubation, the current density increased to 0.15 mA.cm-2 and a stable + 700 mV open circuit potential was reached. Community analysis revealed the presence of two exoelectrogenic bacterial genera, Geovibrio and Geobacter. Development of electroactive biofilms was correlated to bulk chemical transformations of the sediment inoculum with an increase in the Fe(II) to Fetotal ratio. Comparisons to sediments sterilized prior to inoculation confirmed that bioanode development derives from the native microbiota of these paleomarine sediments. This study illustrates the feasibility of developing exoelectrogenic biofilms from iron-rich marlstone and has implications for the role of such bacteria in broader paleoenvironmental phenomena.

The fecal bacterial microbiome of the Kuhl's pipistrelle bat (Pipistrellus kuhlii) reflects landscape anthropogenic pressure

BACKGROUND

Anthropogenic disturbance has the potential to negatively affect wildlife health by altering food availability and diet composition, increasing the exposure to agrochemicals, and intensifying the contact with humans, domestic animals, and their pathogens. However, the impact of these factors on the fecal microbiome composition of wildlife hosts and its link to host health modulation remains barely explored. Here we investigated the composition of the fecal bacterial microbiome of the insectivorous bat Kuhl's pipistrelle (Pipistrellus kuhlii) dwelling in four environmental contexts with different levels of anthropogenic pressure. We analyzed their microbiome composition, structure and diversity through full-length 16S rRNA metabarcoding using the nanopore long-read sequencer MinION™. We hypothesized that the bacterial community structure of fecal samples would vary across the different scenarios, showing a decreased diversity and richness in samples from disturbed ecosystems.

RESULTS

The fecal microbiomes of 31 bats from 4 scenarios were sequenced. A total of 4,829,302 reads were obtained with a taxonomic assignment percentage of 99.9% at genus level. Most abundant genera across all scenarios were Enterococcus, Escherichia/Shigella, Bacillus and Enterobacter. Alpha diversity varied significantly between the four scenarios (p < 0.05), showing the lowest Shannon index in bats from urban and intensive agriculture landscapes, while the highest alpha diversity value was found in near pristine landscapes. Beta diversity obtained by Bray-Curtis distance showed weak statistical differentiation of bacterial taxonomic profiles among scenarios. Furthermore, core community analysis showed that 1,293 genera were shared among localities. Differential abundance analyses showed that the highest differentially abundant taxa were found in near pristine landscapes, with the exception of the family Alcaligenaceae, which was also overrepresented in urban and intensive agriculture landscapes.

CONCLUSIONS

This study suggests that near pristine and undisturbed landscapes could promote a more resilient gut microbiome in wild populations of P. kuhlii. These results highlight the potential of the fecal microbiome as a non-invasive bioindicator to assess insectivorous bats' health and as a key element of landscape conservation strategies.

Advenella mandrilli sp. nov., a bacterium isolated from the faeces of Mandrillus sphinx

A novel Gram-negative strain WQ 585^T, isolated from the faeces of mandrills (Mandrillus sphinx) collected at Yunnan Wild Animal Park, Yunnan province, China, was subjected to a polyphasic taxonomic study. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate belongs to the genus Advenella, sharing 98.5% and 98.2% sequence similarity with the type strain Advenella alkanexedens LAM0050^T and Advenella faeciporci M-07^T, respectively. The predominant ubiquinone was Q-8. The major cellular fatty acids (> 10%) were C_16:0, C_17:0 cyclo and Summed Feature 2. The G + C content of the genomic DNA of strain WQ 585^T was 49.0%. The whole genome average nucleotide identity (gANI) values of strain WQ 585^T with strain A. alkanexedens LAM0050^T and A. faeciporci M-07^T were 86.7% and 86.7%, and the digital DNA-DNA hybridization values of strain WQ 585^T with strain A. alkanexedens LAM0050^T and A. faeciporci M-07^T were 64.5% and 62.5%, respectively. Growth occurred at 10-45 °C (optimally at 20-30 °C), pH 6.0-9.0 (optimally at pH 7.0), and 0-5% (w/v) NaCl (optimally at 0.5-2.0%). On the basis of the taxonomic evidence, a novel species, Advenella mandrilli sp. nov., is proposed. The type strain is WQ 585^T (= KCTC 82396 ^T = CCTCC AA 2020028 ^T).

Proteomic analysis of organic sulfur compound utilisation in Advenella mimigardefordensis strain DPN7T

2-Mercaptosuccinate (MS) and 3,3´-ditiodipropionate (DTDP) were discussed as precursor substance for production of polythioesters (PTE). Therefore, degradation of MS and DTDP was investigated in Advenella mimigardefordensis strain DPN7^T, applying differential proteomic analysis, gene deletion and enzyme assays. Protein extracts of cells cultivated with MS, DTDP or 3-sulfinopropionic acid (SP) were compared with those cultivated with propionate (P) and/or succinate (S). The chaperone DnaK (ratio DTDP/P 9.2, 3SP/P 4.0, MS/S 6.1, DTDP/S 6.2) and a Do-like serine protease (DegP) were increased during utilization of all organic sulfur compounds. Furthermore, a putative bacterioferritin (locus tag MIM_c12960) showed high abundance (ratio DTDP/P 5.3, 3SP/P 3.2, MS/S 4.8, DTDP/S 3.9) and is probably involved in a thiol-specific stress response. The deletion of two genes encoding transcriptional regulators (LysR (MIM_c31370) and Xre (MIM_c31360)) in the close proximity of the relevant genes of DTDP catabolism (acdA, mdo and the genes encoding the enzymes of the methylcitric acid cycle; prpC,acnD, prpF and prpB) showed that these two regulators are essential for growth of A. mimigardefordensis strain DPN7^T with DTDP and that they most probably regulate transcription of genes mandatory for this catabolic pathway. Furthermore, proteome analysis revealed a high abundance (ratio MS/S 10.9) of a hypothetical cupin-2-domain containing protein (MIM_c37420). This protein shows an amino acid sequence similarity of 60% to a newly identified MS dioxygenase from Variovorax paradoxus strain B4. Deletion of the gene and the adjacently located transcriptional regulator LysR, as well as heterologous expression of MIM_c37420, the putative mercaptosuccinate dioxygenase (Msdo) from A. mimigardefordensis, showed that this protein is the key enzyme of MS degradation in A. mimigardefordensis strain DPN7^T (K_M 0.2 mM, specific activity 17.1 μmol mg^-1 min^-1) and is controlled by LysR (MIM_c37410).