Aquella oligotrophica gen. nov. sp. nov.: A new member of the family Neisseriaceae isolated from laboratory tap water

Abstract

A bacterial strain designated as P08 T was isolated from laboratory tap water during a water quality assessment in University of Malaya, Malaysia. The strain was a Gram‐negative, rod‐shaped, nonmotile, and aerobic bacterium. Complete genome of P08 T comprised of a 2,820,660 bp chromosome with a G + C content of 36.43%. Both 16S rRNA phylogeny and phylogenetic tree inferred from the core gene matrix demonstrated that P08 T formed a hitherto unknown subline within the family Neisseriaceae . Ortho average nucleotide identity (OrthoANI) values and the percentage of conserved proteins (POCP) calculated from complete genome sequence indicated low relatedness between P08 T and its phylogenetic neighbors. Respiratory quinone analysis revealed Q‐8 as the only detectable quinone. The predominant cellular fatty acids were identified as C 14:0 , iso‐C 15:0 , and summed feature 3 (C 16:1 ω 7c/C 16:1 ω 6c). The polar lipids consisted of uncharacterized aminolipid, phosphatidylglycerol, and phosphatidylethanolamine. All aspects of phenotypic and phylogenetic data suggested that strain P08 T represents a novel genus within family Neisseriaceae , for which the name Aquella gen. nov. is proposed. The type species of the genus is Aquella oligotrophica sp. nov., and the type strain is P08 T (=LMG 29629 T =DSM 100970 T ).

Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?

“…Multiple prokaryotic genomes are readily available including from type material (Konstantinidis and Tiedje 2005;Ciufo et al 2018). Another genome-based approach to resolve species complexes in prokaryotes is Percentage of Conserved Proteins (POCP) analysis (Qin et al 2014;Martinez-Romero and Ormeño-Orrillo 2019;Peix et al 2019;Wittouck et al 2019;Rensink et al 2020), a method that has now also been implemented in fungi (Wibberg et al 2020). These strategies are still impractical for broad exploration of fungal diversity, as the accurate analysis of fungal genomes is a time-consuming process and sampling remains sparse, although high quality genomes requiring fewer analytical resources may soon become available with improved third generation sequencing techniques, such as PacBio Sequel and Oxford Nanopore Technologies (Tedersoo et al 2018b;Loit et al 2019;Stadler et al 2020;Wibberg et al 2020).…”

Paralysiella testudinis gen. nov., sp. nov., isolated from the cloaca of a toad-headed turtle (Mesoclemmys nasuta)

“…Only limited information regarding polar lipid profiles is available about members of the Neisseriaceae. However, the polar lipid profile of strain 26B T differs not significantly from those of distantly related species of the family such as A. oligotropha [2], A. ursilacus [3], C. sinensis [4] and 'Populibacter cortices' [43]. Hence, it is supposed that the closely related species of strain 26B T have similar polar lipid profiles.…”

“…The family Neisseriaceae belongs to the Betaproteobacteria and so far 18 genera are assigned to this family (https://lpsn.dsmz.de/family/neisseriaceae) including Alysiella [1], Amantichitinum [2], Aquella [3], Bergeriella , Conchiformibius [1], Craterilacuibacter [4], Crenobacter [5], Eikenella [6], Kingella [7], Morococcus [8], Neisseria [9], Prolinoborus [10], Rivicola [11] , Simonsiella [12], Snodgrassella [13], Stenoxybacter [14], Uruburuella [15] and Vitreoscilla [16]. Based on 16S rRNA gene similarities using EzBioCloud [17], the threshold value for assignment to this family is approximately 91 %, which is close to the median sequence identity of 92.25 % reported for families but clearly above the threshold sequence identity of 86.5 % proposed by Yarza et al [18] for family demarcation.…”

“… Neisseriaceae species analysed for chemotaxonomic traits share the presence of a quinone system with ubiquinone Q-8 predominating, the major fatty acids C 16 : 0 and C 16 : 1 ω7 c , and the presence of the hydroxylic acid C 12 : 0 3OH. The presence of other hydroxyl acids is variable [1–5, 11, 13, 19–22]. In the polar lipid profiles, the phospholipids diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine are usually predominant.…”

“…Unlike the well-known human pathogens Neisseria meningitidis and Neisseria gonorrhoeae, Neisseriaceae species are considered apathogenic or do not cause severe diseases. Species have been isolated from a wide diversity of habitats such as human sputum, oral cavities of sheep, cats and dogs, rectal content of Tibetan Plateau pika, gut of the Western honeybee, water of a karst cave, water of a crater lake, sediment lake water, laboratory tap water, sample of a hot spring, and soil of an ant hill [1][2][3][4][5][6][7][8][9][10][11][12][13][14][15][16]. Neisseriaceae species analysed for chemotaxonomic traits share the presence of a quinone system with ubiquinone Q-8 predominating, the major fatty acids C 16 : 0 and C 16 : 1 ω7c, and the presence of the hydroxylic acid C 12 : 0 3OH.…”