Gracilibacillus suaedae sp. nov., an indole acetic acid-producing endophyte isolated from a root of Suaeda salsa

Huang, Xiaoxian; Xu, Liang; Sun, Junsong

doi:10.1099/ijsem.0.005140

“…This genus was isolated from high-salt environments such as salt fields and fermented food [ 43 , 44 ]. Huang et al [ 45 ] found that several strains of Gracilibacillus produce indole acetic acid, a product of the gut microbiota in uremic patients. Previous studies revealed indole acetic acid-induced cardiac injury in patients with end-stage renal disease, including cardiac hypertrophy and diastolic dysfunction [ 46 ].…”

Section: Discussionmentioning

confidence: 99%

Intestinal microbiota and metabolome perturbations in ischemic and idiopathic dilated cardiomyopathy

Wang,

Xie,

Mahara

et al. 2024

J Transl Med

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Background Various clinical similarities are present in ischemic (ICM) and idiopathic dilated cardiomyopathy (IDCM), leading to ambiguity on some occasions. Previous studies have reported that intestinal microbiota appeared dysbiosis in ICM, whether implicating in the IDCM remains unclear. The aim of this study was to assess the alterations in intestinal microbiota and fecal metabolites in ICM and IDCM. Methods ICM (n = 20), IDCM (n = 22), and healthy controls (HC, n = 20) were enrolled in this study. Stool samples were collected for 16S rRNA gene sequencing and gas chromatography-mass spectrometry (GC–MS) analysis. Results Both ICM and IDCM exhibited reduced alpha diversity and altered microbial community structure compared to HC. At the genus level, nine taxa including Blautia, [Ruminococcus]_torques_group, Christensenellaceae_R-7_group, UCG-002, Corynebacterium, Oceanobacillus, Gracilibacillus, Klebsiella and Citrobacter was specific to ICM, whereas one taxa Alistipes uniquely altered in IDCM. Likewise, these changes were accompanied by significant metabolic differences. Further differential analysis displayed that 18 and 14 specific metabolites uniquely changed in ICM and IDCM, respectively. The heatmap was generated to display the association between genera and metabolites. Receiver operating characteristic curve (ROC) analysis confirmed the predictive value of the distinct microbial-metabolite features in disease status. The results showed that microbial (area under curve, AUC = 0.95) and metabolic signatures (AUC = 0.84) were effective in discriminating ICM from HC. Based on the specific microbial and metabolic features, the patients with IDCM could be separated from HC with an AUC of 0.80 and 0.87, respectively. Furthermore, the gut microbial genus (AUC = 0.88) and metabolite model (AUC = 0.89) were comparable in predicting IDCM from ICM. Especially, the combination of fecal microbial-metabolic features improved the ability to differentiate IDCM from ICM with an AUC of 0.96. Conclusion Our findings highlighted the alterations of gut microbiota and metabolites in different types of cardiomyopathies, providing insights into the pathophysiological mechanisms of myocardial diseases. Moreover, multi-omics analysis of fecal samples holds promise as a non-invasive tool for distinguishing disease status. Graphical Abstract

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“…Consequently, all the strains have been generally studied for tolerance to salt and reported to be halotolerant to moderately halophilic in nature. Even species isolated from ecological niches such as fermented fish, kimchi, seeds, roots and fermentation liquor have been found to tolerate up to 22 % (w/v) NaCl and exhibit optimum growth with 1-10 % NaCl [13][14][15][16][17]. Following tolerance to salinity, DNA G+C content at a range of 35.0-43.0 %, the presence of menaquinone-7 (MK-7) as the major respiratory quinone, meso-diaminopimelic acid (meso-DAP) as the cell-wall diamino acid, diphosphatidylglycerol and phosphatidylglycerol as the major polar lipids and iso-C 15 : 0 , anteiso-C 15 : 0 and anteiso-C 17 : 0 as major fatty acids help in the assignment of species to the genus Gracilibacillus [1,6,[15][16][17].…”

Section: Introductionmentioning

confidence: 99%

“…Even species isolated from ecological niches such as fermented fish, kimchi, seeds, roots and fermentation liquor have been found to tolerate up to 22 % (w/v) NaCl and exhibit optimum growth with 1-10 % NaCl [13][14][15][16][17]. Following tolerance to salinity, DNA G+C content at a range of 35.0-43.0 %, the presence of menaquinone-7 (MK-7) as the major respiratory quinone, meso-diaminopimelic acid (meso-DAP) as the cell-wall diamino acid, diphosphatidylglycerol and phosphatidylglycerol as the major polar lipids and iso-C 15 : 0 , anteiso-C 15 : 0 and anteiso-C 17 : 0 as major fatty acids help in the assignment of species to the genus Gracilibacillus [1,6,[15][16][17]. Saline environments have been consistently recorded in scientific literature as an excellent source of microorganisms that have huge biotechnological potential in the areas of agriculture, industry, bio-medicine, bioremediation and biofuels [18][19][20][21][22].…”

Section: Introductionmentioning

confidence: 99%

Gracilibacillus salinarum sp. nov. and Gracilibacillus caseinilyticus sp. nov., halotolerant bacteria isolated from a saltern environment

Subramanian,

Kim,

Naito

et al. 2023

International Journal of Systematic and Evolutionary Microbiology

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Two aerobic, Gram-stain-positive, spore-forming motile bacterial strains, designated SSPM10-3T and SSWR10-1T, were isolated from salterns in Jeollanam province of South Korea. Both strains were halotolerant and grew well in 5 % NaCl but not in 20 and 25% NaCl, respectively. Optimal growth was observed with 5 % NaCl, at 30 °C and at pH 7.0–8.0. On the basis of the results of phylogenetic analysis using 16S rRNA gene sequence, both the strains were placed within the genus Gracilibacillus with Gracilibacillus massiliensis (98.65 % similarity) as their nearest neighbour. Menaquinone-7 (MK-7) (97 %) was the major isoprenoid quinone in both strains and major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0 and anteiso-C17 : 0. Orthologous average nucleotide identity with usearch (OrthoANIu) and digital DNA–DNA hybridisation (dDDH) percentage comparison indicated that SSPM10-3T and SSWR10-1T exhibited highest similarity with G. massiliensis Awa-1T at 74.27 % and 21.0 and 74.23 % and 20.0 %, respectively. The DNA G+C contents of the strains were 39.1 % (SSPM10-3T) and 38.5 % (SSWR10-1T). Members of the genus Gracilibacillus , both strains were distinct from each other with respect to their ability to produce urease, β-glucosidase, assimilation of inulin and methyl-α-d-glucopyranoside and degradation of casein. Compared with each other, ANI and d4 dDDH calculations were only 88.2 % and 36.3 %, well below the cut-off values for species delineation for each index. On the basis of their phenotypic, physiological, biochemical and phylogenetic characteristics,SSPM10-3T and SSWR10-1T represent distinct novel species for which names Gracilibacillus salinarum SSPM10-3T and Gracilibacillus caseinilyticus SSWR10-1T are proposed. The type strains are SSPM10-3T (=KACC 21933T =NBRC 115502T) and SSWR10-1T (=KACC 21934T =NBRC 115503T).

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“…During an ongoing research project on the isolation and characterization of beneficial bacteria from halophytes [7,[11][12][13][14], an ACC deaminase-producing bacterium, designated M5D2P5 T which was isolated from a root of Kalidium cuspidatum, had low 16S rRNA gene similarities with all the current type strains. The characterization of this strain using a polyphasic taxonomy approach is described in this paper.…”

Section: Introductionmentioning

confidence: 99%

Acuticoccus kalidii sp. nov., a 1-aminocyclopropane-1-carboxylate (ACC) deaminase-producing endophyte from a root of Kalidium cuspidatum

Tian

¹

,

Xu

²

,

Xu

³

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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A 1-aminocyclopropane-1-carboxylate (ACC) deaminase-producing, Gram-stain-negative, strictly aerobic, non-motile, yellow-reddish, oval-shaped bacterial strain, designated M5D2P5T, was isolated from a root of Kalidium cuspidatum, in Tumd Right Banner, Inner Mongolia, PR China. M5D2P5T grew at 10–40 °C (optimum 30–35 °C), pH 5.0–10.0 (optimum pH 8.0) and with 0–7% NaCl (optimum 3.0 %). The strain was positive for catalase and oxidase. The phylogenetic trees based on 16S rRNA gene sequences indicated that M5D2P5T clustered with Acuticoccus yangtzensis JL1095T, and shared 98.0, 97.3, 97.2, 96.9 and less than 96.9 % 16S rRNA gene similarities to A. yangtzensis JL1095T, Acuticoccus mangrovi B2012T, Acuticoccus sediminis PTG4-2T, Acuticoccus kandeliae J103T, and all the other type strains, respectively. However, the phylogenomic tree showed it clustered with A. kandeliae J103T. M5D2P5T contained Q-10 as the major respiratory quinone, as well as two minor respiratory quinones, Q-7 and Q-8. Its major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, an unidentified phospholipid, an unidentified glycolipid, and four unidentified lipids. The genomic DNA G+C content was 66.5 %. The digital DNA–DNA hybridization score and the average nucleotide identity based on blast values of M5D2P5T to A. yangtzensis JL1095T, A. kandeliae J103T, A. mangrovi B2012T, and A. sediminis PTG4-2T, were 20.8, 23.7, 20.7, and 21.5 %, and 73.3, 79.5, 74.4, and 73.7 %, respectively. The phylogenetic and phenotypic characteristics allowed the discrimination of M5D2P5T from its phylogenetic relatives. The novel species Acuticoccus kalidii sp. nov. is therefore proposed, and the type strain is M5D2P5T (=CGMCC 1.19149T=KCTC 92132T).

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Gracilibacillus suaedae sp. nov., an indole acetic acid-producing endophyte isolated from a root of Suaeda salsa

Cited by 10 publications

References 49 publications

Intestinal microbiota and metabolome perturbations in ischemic and idiopathic dilated cardiomyopathy

Intestinal microbiota and metabolome perturbations in ischemic and idiopathic dilated cardiomyopathy

Gracilibacillus salinarum sp. nov. and Gracilibacillus caseinilyticus sp. nov., halotolerant bacteria isolated from a saltern environment

Acuticoccus kalidii sp. nov., a 1-aminocyclopropane-1-carboxylate (ACC) deaminase-producing endophyte from a root of Kalidium cuspidatum

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