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Crateriforma spongiae sp. nov., isolated from a marine sponge and emended description of the genus “Crateriforma”

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Abstract

A Gram-stain-negative, aerobic, pear to oval shaped, rosette forming bacterium with crateriform structures well distributed on the cell surface designated as strain JC647T was isolated from a sponge specimen belonging to the genus Spongia. Strain JC647T reproduces through budding. Strain JC647T shared highest 16S rRNA gene sequence identity of 99.9% with “Crateriforma conspicua” Mal65T (not a valid species name). The genome size of strain JC647T is 6.9 Mb with a G + C content of 57.8 mol %. For the resolution of the phylogenetic congruence of the novel strain, the phylogeny was also constructed with the sequences of ninety-two housekeeping genes. Based on the phylogenetic analyses, low dDDH value (51.0%), low gANI (93.2%), low AAI (94.9%) results, chemotaxonomic characteristics and differential physiological properties, strain JC647T is recognized as a new species of the genus “Crateriforma”, for which we propose the name Crateriforma spongiae sp. nov. The type species is JC647T (= KCTC 72176T = NBRC 114068T).

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Abbreviations

NCBI:

National Centre for Biotechnology Information

gANI:

Genome Average Nucleotide Identity

AAI:

Average Amino Acid Identity

dDDH:

Digital DNA–DNA Hybridization

POCP:

Percentage Of Conserved Proteins

HPLC:

High-Pressure Liquid Chromatography

KCTC:

Korean Collection for Type Cultures

NBRC:

Biological Resource Centre, NITE

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Acknowledgements

Gaurav and Ramana thank DBT, New Delhi for the award of SRF and TATA innovation fellowship, respectively. Sasikala, Dhanesh Kumar and Shabbir thank UGC for Mid-career award, RA and SRF awards respectively. Sreya and Jagadeeshwari thank CSIR and TEQIP, respectively for JRF. We also thanks Mr. Bernhard Schink for providing species name and etymology for strain JC647T.

Funding

This work received specific grant from Department of Biotechnology, Government of India, with sanction No. BT/HRD/35/01/02/2015. Financial support received from Council for Scientific and Industrial Research (CSIR), New Delhi is acknowledged. Infrastructure facilities funded by DST-FIST, UGC-SAP (DRS), TEQIP and AICTE are acknowledged.

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Authors and Affiliations

  1. Department of Plant Sciences, School of Life Sciences, University of Hyderabad, P.O. Central University, Hyderabad, 500046, India

    Gaurav Kumar, Dhanesh Kumar, P. K. Sreya, A. Shabbir & Ch. V. Ramana

  2. Bacterial Discovery Laboratory,Centre for Environment, Institute of Science and Technology, JNT University Hyderabad, Kukatpally, Hyderabad, 500085, India

    U. Jagadeeshwari & Ch. Sasikala

Authors
  1. Gaurav Kumar
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  2. Dhanesh Kumar
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  3. U. Jagadeeshwari
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  4. P. K. Sreya
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  5. A. Shabbir
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  6. Ch. Sasikala
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  7. Ch. V. Ramana
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Contributions

GK, Ramana and Sasikala performed sample collection, GK performed media optimisation and polar lipid analysis and wrote manuscript, GK and DK isolated the strain and performed the initial cultivation and strain deposition, GK and SPK performed strain characterisation, DK and GK performed the electron microscopic analysis, JU performed the genomic and phylogenetic analysis, SA performed and analysed the data for polyamines, Ramana and Sasikala supervised the study and contributed to text preparation and revised the manuscript. All authors read and approved the final version of the manuscript.

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Correspondence to Ch. Sasikala or Ch. V. Ramana.

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The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequences of the strains JC647T is LR132071. This Whole Genome Shotgun project has been deposited at DDBJ/ENA/GenBankunder the accession JAAXMS000000000. The version described in this paper is version JAAXMS010000000.

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Kumar, G., Kumar, D., Jagadeeshwari, U. et al. Crateriforma spongiae sp. nov., isolated from a marine sponge and emended description of the genus “Crateriforma”. Antonie van Leeuwenhoek 114, 341–353 (2021). https://doi.org/10.1007/s10482-020-01515-1

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