Complete genome sequence of Butyricimonas faecihominis JCM 18676T.

We report a complete genome sequence of Butyricimonas faecihominis JCM 18676T, generated by nanopore sequencing. The genome consists of a single circular chromosome of 4,851,806 bp, with a G + C content of 42.9%, and was predicted to contain 15 rRNA and 61 tRNA genes and encode for 3,946 proteins.

Complete genome sequence of Blautia luti JCM 17040T.

We generated a complete genome sequence of the type strain of Blautia luti (JCM 17040T = DSM 14534T) by Nanopore sequencing. The genome consists of a circular chromosome of 3,741,599 bp with a G + C content of 42.9% and was predicted to contain 3,431 protein-coding sequences.

A quantitative sequencing method using synthetic internal standards including functional and phylogenetic marker genes.

The method of spiking synthetic internal standard genes (ISGs) to samples for amplicon sequencing, generating sequences and converting absolute gene numbers from read counts has been used only for phylogenetic markers and has not been applied to functional markers. In this study, we developed ISGs, including gene sequences of the 16S rRNA, pmoA, encoding a subunit of particulate methane monooxygenase and amoA, encoding a subunit of ammonia monooxygenase. We added ISGs to the samples, amplified the target genes and performed amplicon sequencing. For the mock community, the copy numbers converted from read counts using ISGs were equivalent to those obtained by the quantitative real-time polymerase chain reaction (4.0 × 104 versus 4.1 × 104 and 3.0 × 103 versus 4.0 × 103 copies µL-DNA-1 for 16S rRNA and pmoA genes, respectively), but we also identified underestimation, possibly due to primer coverage (7.8 × 102 versus 3.7 × 103 µL-DNA-1 for amoA gene). We then applied this method to environmental samples and analysed phylogeny, functional diversity and absolute quantities. One Methylocystis population was most abundant in the sludge samples [16S rRNA gene (3.8 × 109 copies g-1 ) and the pmoA gene (2.3 × 109 copies g-1 )] and were potentially interrelated. This study demonstrates that ISG spiking is useful for evaluating sequencing data processing and quantifying functional markers.

Complete Genome Sequence of Coprobacter fastidiosus JCM 33896T.

We generated a complete genome sequence of Coprobacter fastidiosus JCM 33896T by nanopore sequencing. The genome consists of a single circular chromosome of 3,444,538 bp with a G+C content of 38.4%. Annotation predicted 15 rRNA genes, 67 tRNA genes and 2,662 protein-coding sequences.

Complete Genome Sequence of Anaerostipes hadrus JCM 17467T.

We report a complete genome sequence of Anaerostipes hadrus JCM 17467T. The genome consists of a circular chromosome of 2,804,089 bp, with a G+C content of 37.3%. The genome was predicted to contain 21 rRNA genes, 65 tRNA genes, and 2,675 protein-coding sequences.

Ammonia tolerance and microbial community in thermophilic co-digestion of sewage sludge initiated with lignocellulosic biomass.

Rice straw is a useful lignocellulosic biomass for controlling ammonia inhibition in the thermophilic anaerobic digestion of sewage sludge. However, it is challenging to procure rice straw throughout the year because of its seasonal production. This study investigated methane production in a laboratory-scale digester by gradually decreasing rice straw addition to solid thermophilic sewage sludge digestion. The decrease in rice straw did not accumulate volatile fatty acids and stabilized methane production. Even with increased sludge concentration without rice straw, methane production continued under high ammonia conditions. Ammonia tolerance of the digested sludge of the experimental digester was higher than that of conventionally digested sludge. The cellulose-degrading bacteria Clostridia and high ammonia-resistant archaea Methanosarcina were dominant in the experimentally digested sludge. The community was maintained for over 200 days after discontinuing the rice straw supply. These findings suggest that anaerobic digestion initiation with rice straw is appropriate to facilitate ammonia-tolerant communities.

Distinct comammox Nitrospira catalyze ammonia oxidation in a full-scale groundwater treatment bioreactor under copper limited conditions.

Microbial ammonia oxidation is the initial nitrification step used in biological nitrogen-removal during water treatment processes, and the discovery of complete ammonia-oxidizing (comammox) bacteria added a novel member to this functional group. It is important to identify and understand the predominant microorganisms responsible for ammonium removal in biotechnological process design and optimization. In this study, we used a full-scale bioreactor to treat ammonium in groundwater (9.3 ± 0.5 mg NH4+-N/L) and investigated the key ammonia-oxidizing prokaryotes present. The groundwater ammonium was stably and efficiently oxidized throughout ∼700 days of bioreactor operation. 16S rRNA gene amplicon sequencing of the bioreactor community showed a high abundance of Nitrospira (12.5-45.9%), with the dominant sequence variant (3.5-37.8%) most closely related to Candidatus Nitrospira nitrosa. Furthermore, analyses of amoA, the marker gene for ammonia oxidation, indicated the presence of two distinct comammox Nitrospira populations, however, the relative abundance of only one of these populations was strongly correlated to ammonia oxidation rates and was robustly expressed. After 380 days of operation copper wires were immersed into the reactor at 0.04-0.06 m2/m3 tank, which caused a gradual abundance increase of one discrete comammox Nitrospira population. However, further increase of the copper dosing (0.08 m2/m3 tank) inverted the most abundant ammonia-oxidizing population to Nitrosomonas sp. These results indicate that comammox Nitrospira were capable of efficient ammonium removal in groundwater without exogenous nutrients, but copper addition can stimulate comammox Nitrospira or lead to dominance of Nitrosomonas depending on dosage.

A bioelectrochemical-system-based trickling filter reactor for wastewater treatment.

A bioelectrochemical system (BES)-based trickling filter (TF) reactor was utilized for wastewater treatment. At a COD load of 1.0 g-COD/L/day, effluent chemical oxygen demand (COD) and total nitrogen (TN) were 115 and 108 mg/L, respectively, which were allowed for discharge. Superior performance was achieved at 0.5 g-COD/L/day with a circulation rate of 8 L/h, and both COD and TN removal were >98%. Coulombic efficiency was 11% at 1.0 g-COD/L/day and at most 16% at 0.5 g-COD/L/day. COD removal decreased when the BES was removed, demonstrating that BES improved COD removal capability. In anodic biofilms, exoelectrogenic, facultative, nitrifying, and sulfate-reducing bacteria could coexist. Geobacter for current generation grew inside the biofilm, and bacteria in the middle and outer layers consumed oxygen and degraded organic matter and nitrogen. This BES-based TF reactor may be used for efficient and cost-effective COD and TN removal at high loads without excess sludge removal.

Immune and endocrine function in patients with burning mouth syndrome.

OBJECTIVES: Research suggests that varied etiologic factors are responsible for burning mouth syndrome (BMS). We examined the role of immune and endocrine function in the pathology of BMS. METHODS: We conducted a case-control study to evaluate immune (lymphocyte subpopulations) and endocrine (hypothalamus-pituitary-adrenal axis and sympathetic-adrenomedullary system) function in 47 female BMS patients and 47 age-matched female controls presenting at an university clinic. Psychological state was assessed with the Zung Self-Rating Depression Scale and Taylor Manifest Anxiety Scale. RESULTS: BMS patients were significantly more anxious than controls (P=0.011). Plasma adrenaline level was significantly lower (P=0.020) in BMS patients than in controls, and linear regression analysis of all patients combined revealed that depression level was significantly positively associated with plasma noradrenaline and cortisol levels (P=0.002 and 0.001, respectively). However, as compared with controls, BMS patients had a significantly lower CD8(+) cell count (P<0.001) and a significantly higher CD4/CD8 ratio (P=0.002). Discriminant analysis revealed that CD8(+) cell count and CD4/CD8 ratio were independent variables that distinguished BMS patients from controls. DISCUSSION: The immunoendocrine system is substantially involved, and may have a key role, in the mechanism of chronic pain in BMS patients. Immune function was significantly and specifically suppressed in BMS, although the hypothalamic-pituitary-adrenal axis and sympathetic nervous system were predominantly activated by psychological stress that was not specific to BMS.

A possible case of complex regional pain syndrome in the orofacial region.

OBJECTIVE: To present a case of complex regional pain syndrome (CRPS) type II with sympathetic dysfunction and trophic changes in the orofacial region, which was partially responsive to intravenous ketamine. PATIENT: The patient was a 68-year-old man who suffered from inveterate pain with trophic changes of the right face and tongue and vasomotor dysfunction on the right side of the face after ipsilateral trigeminal nerve block. Allodynia and hyperalgesia were observed on the affected side of the face. Pain initially improved after sympathetic nerve block, but similar pain returned that was unresponsive to the same procedure. Repeated intravenous administration of low-dose ketamine preceded by intravenous midazolam alleviated the pain, but trophic changes of the tongue persisted. DISCUSSION: CRPS in the orofacial region has not been clearly defined and has been infrequently documented. Clinical findings in this patient met the criteria of the International Association for the Study of Pain's and Harden's diagnostic criteria for CRPS. The reason for gradual pain relief after induction of intravenous ketamine therapy was unclear, but the fact that only ketamine and not other various pain medicines or procedures alleviated the pain is important to note. CONCLUSION: Distinct cases of CRPS involving the orofacial region are rare. Thorough observations and documentation of signs and symptoms may lead to future standardization of diagnostic criteria and treatment strategies for this disorder.