Publications by authors named "Saefuddin Aziz"

8 Publications

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Draft Genome Sequence of the Halophilic Strain Citrobacter braakii AN-PRR1, Isolated from Rhizospheric Soil of Rice (Oryza sativa L.) from Pakistan.

Microbiol Resour Announc 2021 Sep 23;10(38):e0078721. Epub 2021 Sep 23.

Department of Pharmaceutical Biology, Pharmaceutical Institute, University of Tübingen, Tübingen, Germany.

Citrobacter braakii AN-PRR1 is a potential salt-tolerant, plant growth-promoting rice rhizobacterium isolated from Pakistani soil. The 4.9-Mb draft genome sequence contributes to its taxonomic classification and will reveal the genes putatively responsible for its osmoprotectant and plant growth-promoting activity.
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http://dx.doi.org/10.1128/MRA.00787-21DOI Listing
September 2021

Maculosin, a non-toxic antioxidant compound isolated from sp. KTM18.

Pharm Biol 2021 Dec;59(1):933-936

Department of Pharmaceutical Biology, Eberhard Karls University, Tübingen, Germany.

Context: species are prolific sources of bioactive secondary metabolites known especially for their antimicrobial and anticancer activities.

Objective: This study sought to isolate and characterize antioxidant molecules biosynthesized by sp. KTM18. The antioxidant potential of an isolated compound and its toxicity were accessed.

Materials And Methods: The compound was purified using bioassay-guided chromatography techniques. Nuclear magnetic resonance (NMR) experiments were carried out for structure elucidation. The antioxidant potential of the isolated compound was determined using DPPH free radical scavenging assay. The toxicity of the isolated compound was measured using a brine shrimp lethality (BSL) assay.

Results: Ethyl acetate extract of sp. KTM18 showed more than 90% inhibition of DPPH free radical at 50 µg/mL of the test concentration. These data were the strongest among 13 isolates (KTM12-KTM24). The active molecule was isolated and characterized as maculosin (molecular formula, CHNO as determined by the [M + H] peak at 261.1259). The DPPH free radical scavenging activity of pure maculosin was higher (IC, 2.16 ± 0.05 µg/mL) than that of commercial butylated hydroxyanisole (BHA) (IC, 4.8 ± 0.05 µg/mL). No toxicity was observed for maculosin (LD, <128 µg/mL) in brine shrimp lethality assay (BSLA) up to the compound's antioxidant activity (IC) concentration range. The commercial standard, berberine chloride, showed toxicity in BSLA with an LD value of 8.63 ± 0.15 µg/mL.

Conclusions: Maculosin may be a leading drug candidate in various cosmetic and therapeutic applications owing to its strong antioxidant and non-toxic properties.
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http://dx.doi.org/10.1080/13880209.2021.1946091DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8274501PMC
December 2021

Mining Indonesian Microbial Biodiversity for Novel Natural Compounds by a Combined Genome Mining and Molecular Networking Approach.

Mar Drugs 2021 May 28;19(6). Epub 2021 May 28.

Department of Microbiology/Biotechnology, Interfaculty Institute of Microbiology and Infection Medicine, Tübingen (IMIT), Cluster of Excellence 'Controlling Microbes to Fight Infections', University of Tübingen, Auf der Morgenstelle 28, 72076 Tübingen, Germany.

Indonesia is one of the most biodiverse countries in the world and a promising resource for novel natural compound producers. Actinomycetes produce about two thirds of all clinically used antibiotics. Thus, exploiting Indonesia's microbial diversity for actinomycetes may lead to the discovery of novel antibiotics. A total of 422 actinomycete strains were isolated from three different unique areas in Indonesia and tested for their antimicrobial activity. Nine potent bioactive strains were prioritized for further drug screening approaches. The nine strains were cultivated in different solid and liquid media, and a combination of genome mining analysis and mass spectrometry (MS)-based molecular networking was employed to identify potential novel compounds. By correlating secondary metabolite gene cluster data with MS-based molecular networking results, we identified several gene cluster-encoded biosynthetic products from the nine strains, including naphthyridinomycin, amicetin, echinomycin, tirandamycin, antimycin, and desferrioxamine B. Moreover, 16 putative ion clusters and numerous gene clusters were detected that could not be associated with any known compound, indicating that the strains can produce novel secondary metabolites. Our results demonstrate that sampling of actinomycetes from unique and biodiversity-rich habitats, such as Indonesia, along with a combination of gene cluster networking and molecular networking approaches, accelerates natural product identification.
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http://dx.doi.org/10.3390/md19060316DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8227522PMC
May 2021

Nocathioamides, Uncovered by a Tunable Metabologenomic Approach, Define a Novel Class of Chimeric Lanthipeptides.

Angew Chem Int Ed Engl 2021 07 17;60(30):16472-16479. Epub 2021 Jun 17.

Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Auf der Morgenstelle 8, 72076, Tübingen, Germany.

The increasing number of available genomes, in combination with advanced genome mining techniques, unveiled a plethora of biosynthetic gene clusters (BGCs) coding for ribosomally synthesized and post-translationally modified peptides (RiPPs). The products of these BGCs often represent an enormous resource for new and bioactive compounds, but frequently, they cannot be readily isolated and remain cryptic. Here, we describe a tunable metabologenomic approach that recruits a synergism of bioinformatics in tandem with isotope- and NMR-guided platform to identify the product of an orphan RiPP gene cluster in the genomes of Nocardia terpenica IFM 0406 and 0706 . The application of this tactic resulted in the discovery of nocathioamides family as a founder of a new class of chimeric lanthipeptides I.
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http://dx.doi.org/10.1002/anie.202102571DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8362196PMC
July 2021

Draft Genome Sequence of the Sattazolin-Producing Strain sp. C8, Isolated from a Mud Dauber Wasp Nest in Nepal.

Microbiol Resour Announc 2021 Mar 11;10(10). Epub 2021 Mar 11.

Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Tübingen, Germany

Here, we report a 6.2-Mbp draft genome sequence of the bacterium sp. strain C8, which gave insight into the complete secondary metabolite production capacity of the strain and hinted that the strain possibly represents a new species.
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http://dx.doi.org/10.1128/MRA.00007-21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7953278PMC
March 2021

Draft Genome Sequence of sp. Strain C10, a Producer of Brartemicin, Isolated from a Mud Dauber Wasp Nest in Nepal.

Microbiol Resour Announc 2019 Nov 7;8(45). Epub 2019 Nov 7.

Department of Pharmaceutical Biology, Pharmaceutical Institute, University of Tübingen, Tübingen, Germany

sp. strain C10 produces the cytotoxic natural product brartemicin. Here, we report its draft genome sequence to get insight into brartemicin biosynthesis and to enable genome mining for novel secondary metabolites.
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http://dx.doi.org/10.1128/MRA.01109-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6838623PMC
November 2019

Draft Genome Sequence of the Pristinamycin-Producing Strain Streptomyces sp. SW4, Isolated from Soil in Nusa Kambangan, Indonesia.

Microbiol Resour Announc 2018 Aug 23;7(7). Epub 2018 Aug 23.

Department of Pharmaceutical Biology, Institute of Pharmaceutical Sciences, University of Tübingen, Tübingen, Germany.

Streptomyces sp. strain SW4 exhibited broad-spectrum antibacterial activity toward Gram-positive and Gram-negative pathogens. The 7.5-Mb draft genome sequence gives insight into the complete secondary metabolite production capacity and reveals genes putatively responsible for its antibacterial activity.
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http://dx.doi.org/10.1128/MRA.00912-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6256442PMC
August 2018
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