Draft Genome Sequence of Endophytically Isolated from Roots of

Overview

Journal Microbiol Resour Announc

Publisher American Society for Microbiology

Specialty Microbiology

Date 2024 Sep 16

PMID 39283091

Authors

Felipe de Paula Nogueira Cruz

Paulo Henrique Marques de Andrade

Cristina Paiva de Sousa

Paulo Teixeira Lacava

Affiliations

Soon will be listed here.

Abstract

is a medicinal plant that harbors a remaining unknown microbiome. Those plants are known for their analgesic and anti-inflammatory properties and are widely found in the Brazilian Atlantic Forest. Herein, we report the isolation of the endophyte GPP30 with a draft genome estimated at 4.0 Mpb.

References

Bogas A, Ferreira A, Araujo W, Astolfi-Filho S, Kitajima E, Teixeira Lacava P . Endophytic bacterial diversity in the phyllosphere of Amazon Paullinia cupana associated with asymptomatic and symptomatic anthracnose. Springerplus. 2015; 4:258. PMC: 4467821. DOI: 10.1186/s40064-015-1037-0. View

Okonechnikov K, Golosova O, Fursov M . Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics. 2012; 28(8):1166-7. DOI: 10.1093/bioinformatics/bts091. View

Zankari E, Hasman H, Cosentino S, Vestergaard M, Rasmussen S, Lund O . Identification of acquired antimicrobial resistance genes. J Antimicrob Chemother. 2012; 67(11):2640-4. PMC: 3468078. DOI: 10.1093/jac/dks261. View

Aziz R, Bartels D, Best A, DeJongh M, Disz T, Edwards R . The RAST Server: rapid annotations using subsystems technology. BMC Genomics. 2008; 9:75. PMC: 2265698. DOI: 10.1186/1471-2164-9-75. View

Khalid F, Khalid A, Fu Y, Hu Q, Zheng Y, Khan S . Potential of Bacillus velezensis as a probiotic in animal feed: a review. J Microbiol. 2021; 59(7):627-633. DOI: 10.1007/s12275-021-1161-1. View

Bankevich A, Nurk S, Antipov D, Gurevich A, Dvorkin M, Kulikov A . SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012; 19(5):455-77. PMC: 3342519. DOI: 10.1089/cmb.2012.0021. View

Cosentino S, Larsen M, Aarestrup F, Lund O . PathogenFinder--distinguishing friend from foe using bacterial whole genome sequence data. PLoS One. 2013; 8(10):e77302. PMC: 3810466. DOI: 10.1371/journal.pone.0077302. View

Richter M, Rossello-Mora R, Glockner F, Peplies J . JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics. 2015; 32(6):929-31. PMC: 5939971. DOI: 10.1093/bioinformatics/btv681. View

Richter M, Rossello-Mora R . Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A. 2009; 106(45):19126-31. PMC: 2776425. DOI: 10.1073/pnas.0906412106. View

10.

Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K . BLAST+: architecture and applications. BMC Bioinformatics. 2009; 10:421. PMC: 2803857. DOI: 10.1186/1471-2105-10-421. View

11.

Kurtz S, Phillippy A, Delcher A, Smoot M, Shumway M, Antonescu C . Versatile and open software for comparing large genomes. Genome Biol. 2004; 5(2):R12. PMC: 395750. DOI: 10.1186/gb-2004-5-2-r12. View

12.

Fan B, Wang C, Song X, Ding X, Wu L, Wu H . FZB42 in 2018: The Gram-Positive Model Strain for Plant Growth Promotion and Biocontrol. Front Microbiol. 2018; 9:2491. PMC: 6198173. DOI: 10.3389/fmicb.2018.02491. View

13.

Adeniji A, Loots D, Babalola O . Bacillus velezensis: phylogeny, useful applications, and avenues for exploitation. Appl Microbiol Biotechnol. 2019; 103(9):3669-3682. DOI: 10.1007/s00253-019-09710-5. View

14.

de Paula Nogueira Cruz F, de Paula A, Nogueira C, Marques de Andrade P, Borges L, Teixeira Lacava P . Discovery of a Novel Lineage ST 1870 Endophytically Isolated from Medicinal Which Shows Potent Antileishmanial and Antimicrobial Effects. Int J Microbiol. 2021; 2021:6618559. PMC: 7904367. DOI: 10.1155/2021/6618559. View

15.

Rabbee M, Sarafat Ali M, Choi J, Hwang B, Jeong S, Baek K . A Valuable Member of Bioactive Molecules within Plant Microbiomes. Molecules. 2019; 24(6). PMC: 6470737. DOI: 10.3390/molecules24061046. View

16.

Teeling H, Meyerdierks A, Bauer M, Amann R, Glockner F . Application of tetranucleotide frequencies for the assignment of genomic fragments. Environ Microbiol. 2004; 6(9):938-47. DOI: 10.1111/j.1462-2920.2004.00624.x. View

17.

Gurevich A, Saveliev V, Vyahhi N, Tesler G . QUAST: quality assessment tool for genome assemblies. Bioinformatics. 2013; 29(8):1072-5. PMC: 3624806. DOI: 10.1093/bioinformatics/btt086. View

18.

Blin K, Shaw S, Augustijn H, Reitz Z, Biermann F, Alanjary M . antiSMASH 7.0: new and improved predictions for detection, regulation, chemical structures and visualisation. Nucleic Acids Res. 2023; 51(W1):W46-W50. PMC: 10320115. DOI: 10.1093/nar/gkad344. View