02605nas a2200265 4500008004100000245008000041210006900121260001200190300001200202490000700214520178100221653002302002653000902025653002402034653001702058100002102075700001802096700001902114700002302133700001902156700001902175700002002194700001902214856010602233 2017 eng d00aMultilocus sequence typing of Ochrobactrum spp. isolated from gastric niche0 aMultilocus sequence typing of Ochrobactrum spp isolated from gas cMAR-APR a201-2100 v103 aThe human stomach is colonized by diverse bacterial species. The presence of non-Helicobacter pylori bacteria in urease-positive biopsies of individuals has been reported. Bacteria belonging to the Ochrobactrum genus have been documented in the human gastric niche. The co-occurrence of Ochrobactrum spp. with H. pylori was previously reported in an antral biopsy of a non-ulcer dyspeptic (NUD) subject from Northern India. There is no information on the genetic diversity of Ochrobactrum spp. isolated from the gastric niche in the stomach. We aimed to study the species distribution and diversity of Ochrobactrum spp. with and without H. pylori in urease-positive biopsies across three different geographical regions in India. Sixty-two Ochrobactrum isolates recovered from patients with an upper gastric disorder (n=218) were subjected to molecular identification and multilocus sequence typing. H. pylori DNA was found in the majority of biopsies, which had a variable degree of Ochrobactrum spp present. Interestingly, some of the urease-positive biopsies only had Ochrobactrum without any H. pylori DNA. Based on phylogenetic analysis, the Ochrobactrum isolates were distributed into the O. intermedium, O. anthropi and O. oryzae groups. This indicates there are multiple species in the gastric niche irrespective of the presence or absence of H. pylori. Antibiotyping based on colistin and polymyxin B could differentiate between O. intermedium and O. anthropi without revealing the resistance-driven diversity. Considering the prevalence of multiple Ochrobactrum spp. in the human gastric niche, it is important to evaluate the commensal and/or pathogenic nature of non-H. pylori bacteria with respect to their geographical distribution, lifestyle and nutrition needs.10aHelicobater Pyroli10aMLST10aNon-Ulcer Dyspepsia10aOchrobactrum1 aKulkarni, Girish1 aGohil, Kushal1 aMisra, Vatsala1 aKakrani, Arjun, L.1 aMisra, Sri, P.1 aPatole, Milind1 aShouche, Yogesh1 aDharne, Mahesh uhttps://library.ncl.res.in/content/multilocus-sequence-typing-ochrobactrum-spp-isolated-gastric-niche02667nas a2200253 4500008004100000022001400041245013800055210006900193260000900262300001100271490000800282520178300290653002602073653001702099653002202116653002302138653002002161100002302181700001802204700001802222700002202240700001902262856013202281 2020 eng d a0147-651300aComprehensive metagenomic insights into a unique mass gathering and bathing event reveals transient influence on a riverine ecosystem0 aComprehensive metagenomic insights into a unique mass gathering  cOCT  a1109380 v2023 a

The religious mass gathering and bathing can pose a multitude of significant public health challenges and lead to severe alterations in the river microbial ecology. The Pandharpur Wari is an annual pilgrimage of Maharashtra, India, where millions of devotees carry the footprints of the saint-poets and pay their obeisance to Lord Vitthal on the 11th day of moon's waxing phase (Ashadi Ekadashi). As a part of the ritual, the engrossed devotees, walk over 250 km, take a first holy dip in a sacred river Indrayani at Alandi and secondly in Bhima River at Pandharpur. The MinION-based shotgun metagenomic approach was employed to examine the impact of spiritual mass bathing on environmental changes (concerning the river microbial community structure and functions); and public health aspects (in terms of changes in the pathogenic potential and antibiotic resistance). The analysis of bathing and post-bathing samples of both the rivers revealed alterations in the alpha and beta diversity, indicating significant spatiotemporal variations in the overall microbial structure and function. Furthermore, the analysis revealed up to 80% of differences in the abundance of virulence genes between the bathing and post bathing samples. We observed parallel increase of priority skin and enteric pathogens (ranging from 11% to 80%) such as Acinetobacter baumannii, Staphylococcus aureus, Streptococcus pyogenes, Mycobacterium tuberculosis, and Pseudomonas aeruginosa during the bathing event. Moreover, we observed a significant increase in the antibiotic resistance in the bathing samples of Bhima and Indrayani rivers respectively. Altogether, this is the first comprehensive metagenomic study unravelling the influence of religious mass-bathing on the riverine ecosystem.

10aAntibiotic resistance10aMass bathing10aMinION sequencing10aPriority pathogens10aVirulence genes1 aYadav, Rakeshkumar1 aRajput, Vinay1 aGohil, Kushal1 aKhairnar, Krishna1 aDharne, Mahesh uhttps://library.ncl.res.in/content/comprehensive-metagenomic-insights-unique-mass-gathering-and-bathing-event-reveals-transient02632nas a2200241 4500008004100000022001400041245012900055210006900184260000800253300001400261490000800275520178200283653002602065653003202091653003902123653001502162653001102177653002202188100001802210700001802228700001902246856012502265 2020 eng d a0888-754300aPan-genomics of Ochrobactrum species from clinical and environmental origins reveals distinct populations and possible links0 aPangenomics of Ochrobactrum species from clinical and environmen cSEP a3003-30120 v1123 a

Ochrobactrum genus is comprised of soil-dwelling Gram-negative bacteria mainly reported for bioremediation of toxic compounds. Since last few years, mainly two species of this genus, O. intermedium and O. anthropi were documented for causing infections mostly in the immunocompromised patients. Despite such ubiquitous presence, study of adaptation in various niches is still lacking. Thus, to gain insights into the niche adaptation strategies, pan-genome analysis was carried out by comparing 67 genome sequences belonging to Ochrobactrum species. Pan-genome analysis revealed it is an open pan-genome indicative of the continuously evolving nature of the genus. The presence/absence of gene clusters also illustrated the unique presence of antibiotic efflux transporter genes and type IV secretion system genes in the clinical strains while the genes of solvent resistance and exporter pumps in the environmental strains. A phylogenomic investigation based on 75 core genes depicted better and robust phylogenetic resolution and topology than the 16S rRNA gene. To support the pan-genome analysis, individual genomes were also investigated for the mobile genetic elements (MGE), antibiotic resistance genes (ARG), metal resistance genes (MRG) and virulence factors (VF). The analysis revealed the presence of MGE, ARG, and MRG in all the strains which play an important role in the species evolution which is in agreement with the pan-genome analysis. The average nucleotide identity (ANI) based on the genetic relatedness between the Ochrobactrum species indicated a distinction between individual species. Interestingly, the ANI tool was able to classify the Ochrobactrum genomes to the species level which were assigned till the genus level on the NCBI database.

10aAntibiotic resistance10aAverage nucleotide identity10aClinical and environmental strains10aCore genes10aMinION10aVirulence factors1 aGohil, Kushal1 aRajput, Vinay1 aDharne, Mahesh uhttps://library.ncl.res.in/content/pan-genomics-ochrobactrum-species-clinical-and-environmental-origins-reveals-distinct01942nas a2200229 4500008004100000022001400041245008000055210006900135260000800204490000700212520122900219653001501448653001301463653001801476653001501494653003201509100001801541700001901559700001901578700001901597856009601616 2021 eng d a2190-572X00aProbiotics in the prophylaxis of COVID-19: something is better than nothing0 aProbiotics in the prophylaxis of COVID19 something is better tha cJAN0 v113 a

The new viral pandemic of COVID-19 is caused by a novel coronavirus (SARS-CoV-2) that has brought the world at another unprecedented crisis in terms of health and economy. The lack of specific therapeutics necessitates other strategies to prevent the spread of infection caused by this previously unknown viral etiological agent. Recent pieces of evidence have shown an association between COVID-19 disease and intestinal dysbiosis. Probiotics comprise living microbes that upon oral administration benefit human health by reshaping the composition of gut microbiota. The close kinship of the gastrointestinal and respiratory tract suggests why the dysfunction of one may incite illness in others. The emerging studies suggest the capability of probiotics to regulate immune responses in the respiratory system. The efficacy of probiotics has been studied previously on several respiratory tract viral infections. Therefore, the purpose of this review is to comprehend existing information on the gut mediated-pulmonary immunity conferred by probiotic bacteria, in the course of respiratory virus infections and administration as a prophylactic measure in COVID-19 pandemic in managing intestinal dysbiosis as well.

10aAnti-viral10aCOVID-1910aGut-lung axis10aProbiotics10aRespiratory tract infection1 aGohil, Kushal1 aSamson, Rachel1 aDastager, Syed1 aDharne, Mahesh uhttps://library.ncl.res.in/content/probiotics-prophylaxis-covid-19-something-better-nothing00781nas a2200205 4500008004100000022001400041245012100055210006900176260001200245300000900257490000700266100002300273700001800296700002300314700001800337700002300355700004200378700002700420856012800447 2022 eng d a0972-232700aGut microbiota dysbiosis in patients with intracranial sino-venous thrombosis and acute ischemic stroke in the young0 aGut microbiota dysbiosis in patients with intracranial sinovenou cSEP-OCT a980+0 v251 aPrabhu, Varsha, A.1 aRajput, Vinay1 aYadav, Rakeshkumar1 aGohil, Kushal1 aDharne, Mahesh, S.1 aUnnikrishnan, Mazhuvancherry, Kesavan1 aGorthi, Sankar, Prasad uhttps://library.ncl.res.in/content/gut-microbiota-dysbiosis-patients-intracranial-sino-venous-thrombosis-and-acute-ischemic