scholarly journals Phylogenomics of two ST1 antibiotic-susceptible non-clinical Acinetobacter baumannii strains reveals multiple lineages and complex evolutionary history in global clone 1

2021 ◽  
Vol 7 (12) ◽  
Author(s):  
Jonathan Koong ◽  
Claire Johnson ◽  
Rayane Rafei ◽  
Monzer Hamze ◽  
Garry S. A. Myers ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Genome Sequence ◽  
Evolutionary History ◽  
Sequence Data ◽  
Opportunistic Pathogen ◽  
Outer Core ◽  
Content Type ◽  
Geographical Regions ◽  
Long Read ◽  
Complex Evolutionary History

Acinetobacter baumannii is an opportunistic pathogen that is difficult to treat due to its resistance to extreme conditions, including desiccation and antibiotics. Most strains causing outbreaks around the world belong to two main global lineages, namely global clones 1 and 2 (GC1 and GC2). Here, we used a combination of Illumina short read and MinION (Oxford Nanopore) long-read sequence data with a hybrid assembly approach to complete the genome sequence of two antibiotic-sensitive GC1 strains, Ex003 and Ax270, recovered in Lebanon from water and a rectal swab of a cat, respectively. Phylogenetic analysis of Ax270 and Ex003 with 186 publicly available GC1 genomes revealed two major clades, including five main lineages (L1–L5), and four single-isolate lineages outside of the two clades. Ax270 and Ex003, along with AB307-0294 and MRSN7213 (both predicted antibiotic-susceptible isolates) represent these individual lineages. Antibiotic resistance islands and transposons interrupting the comM gene remain important features in L1–L5, with L1 associated with the AbaR-type resistance islands, L2 with AbaR4, L3 strains containing either AbaR4 or its variants as well as Tn6022::ISAba42, and L4 and L5 associated with Tn6022 or its variants. Analysis of the capsule (KL) and outer core (OCL) polysaccharide loci further revealed a complex evolutionary history probably involving many recombination events. As more genomes become available, more GC1 lineages continue to emerge. However, genome sequence data from more diverse geographical regions are needed to draw a more accurate population structure of this globally distributed clone.

scholarly journals Complete Genome Sequence of WM99c, an Antibiotic-Resistant Acinetobacter baumannii Global Clone 2 (GC2) Strain Representing an Australian GC2 Lineage

2018 ◽  
Vol 7 (22) ◽  
Author(s):  
Steven J. Nigro ◽  
Ryan Wick ◽  
Kathryn E. Holt ◽  
Ruth M. Hall
Keyword(s):  
Acinetobacter Baumannii ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
East Coast ◽  
Antibiotic Resistant ◽  
Content Type ◽  
Long Read ◽  
Distinct Lineage ◽  
Sydney Australia

The extensively antibiotic-resistant Acinetobacter baumannii isolate WM99c recovered in Sydney, Australia, in 1999 is an early representative of a distinct lineage of global clone 2 (GC2) seen on the east coast of Australia. We present the complete 4.121-Mbp genome sequence (chromosome plus 2 plasmids), generated via long-read sequencing (PacBio).

scholarly journals Complete Genome Sequence of Acinetobacter baumannii ATCC 19606T, a Model Strain of Pathogenic Bacteria Causing Nosocomial Infection

2020 ◽  
Vol 9 (20) ◽  
Author(s):  
Taishi Tsubouchi ◽  
Masato Suzuki ◽  
Makoto Niki ◽  
Ken-Ichi Oinuma ◽  
Mamiko Niki ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Genome Sequence ◽  
Pathogenic Bacteria ◽  
Sequence Type ◽  
Sequencing Data ◽  
Beta Lactam ◽  
Genetic Studies ◽  
Content Type ◽  
Long Read ◽  
Model Strain

Acinetobacter baumannii ATCC 19606T, which is often used in genetic studies as a routine model microorganism, belongs to sequence type 52 (ST52), showing beta-lactam resistance. We present the complete 3.996-Mbp genome sequence (1 chromosome plus 2 plasmids), generated by combining long-read (MinION) and short-read (MiniSeq) sequencing data.

scholarly journals Complete Genome Sequence of a Clinical Isolate of Acinetobacter baumannii Harboring 11 Plasmids

2021 ◽  
Vol 10 (39) ◽  
Author(s):  
Arata Sakiyama ◽  
Yuki Matsumoto ◽  
Taishi Tsubouchi ◽  
Masato Suzuki ◽  
Makoto Niki ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Clinical Isolate ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Short Read ◽  
Content Type ◽  
Long Read

Here, we report the complete genome sequence of an Acinetobacter baumannii isolate harboring 11 plasmids, obtained at a hospital in Japan in 2016. The complete 4.07-Mbp genome sequence (1 chromosome and 11 plasmids) was analyzed by a combination of long-read (Flongle) and short-read (NovaSeq 6000) sequencing.

scholarly journals Lon Protease Has Multifaceted Biological Functions inAcinetobacter baumannii

2018 ◽  
Vol 201 (2) ◽  
Author(s):  
Carly Ching ◽  
Brendan Yang ◽  
Chineme Onwubueke ◽  
David Lazinski ◽  
Andrew Camilli ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Biofilm Formation ◽  
Developmental Process ◽  
Cell Envelope ◽  
Opportunistic Pathogen ◽  
Lon Protease ◽  
Content Type ◽  
Hospital Acquired Infections ◽  
Biofilm Development ◽  
Hospital Acquired

ABSTRACTAcinetobacter baumanniiis a Gram-negative opportunistic pathogen that is known to survive harsh environmental conditions and is a leading cause of hospital-acquired infections. Specifically, multicellular communities (known as biofilms) ofA. baumanniican withstand desiccation and survive on hospital surfaces and equipment. Biofilms are bacteria embedded in a self-produced extracellular matrix composed of proteins, sugars, and/or DNA. Bacteria in a biofilm are protected from environmental stresses, including antibiotics, which provides the bacteria with selective advantage for survival. Although some gene products are known to play roles in this developmental process inA. baumannii, mechanisms and signaling remain mostly unknown. Here, we find that Lon protease inA. baumanniiaffects biofilm development and has other important physiological roles, including motility and the cell envelope. Lon proteases are found in all domains of life, participating in regulatory processes and maintaining cellular homeostasis. These data reveal the importance of Lon protease in influencing keyA. baumanniiprocesses to survive stress and to maintain viability.IMPORTANCEAcinetobacter baumanniiis an opportunistic pathogen and is a leading cause of hospital-acquired infections.A. baumanniiis difficult to eradicate and to manage, because this bacterium is known to robustly survive desiccation and to quickly gain antibiotic resistance. We sought to investigate biofilm formation inA. baumannii, since much remains unknown about biofilm formation in this bacterium. Biofilms, which are multicellular communities of bacteria, are surface attached and difficult to eliminate from hospital equipment and implanted devices. Our research identifies multifaceted physiological roles for the conserved bacterial protease Lon inA. baumannii. These roles include biofilm formation, motility, and viability. This work broadly affects and expands understanding of the biology ofA. baumannii, which will permit us to find effective ways to eliminate the bacterium.

scholarly journals Corrected Genome Sequence of Acinetobacter baumannii Strain AB0057, an Antibiotic-Resistant Isolate from Lineage 1 of Global Clone 1

2017 ◽  
Vol 5 (35) ◽  
Author(s):  
Mohammad Hamidian ◽  
Pratap Venepally ◽  
Ruth M. Hall ◽  
Mark D. Adams
Keyword(s):  
United States ◽  
Acinetobacter Baumannii ◽  
Genome Sequence ◽  
The United States ◽  
Targeted Sequencing ◽  
Resistant Isolate ◽  
Illumina Hiseq ◽  
Antibiotic Resistant ◽  
Content Type ◽  
Pcr Products

ABSTRACT Extensively antibiotic-resistant Acinetobacter baumannii isolate AB0057 recovered in the United States in 2004 was one of the first global clone 1 isolates to be completely sequenced. Here, the complete 4.05-Mb genome sequence (chromosome and one plasmid) has been revised using Illumina HiSeq data and targeted sequencing of PCR products.

scholarly journals Draft Genome Sequence of NDM-1-Producing Leclercia adecarboxylata

2017 ◽  
Vol 5 (17) ◽  
Author(s):  
Yannick Hoyos-Mallecot ◽  
María Dolores Rojo-Martín ◽  
Rémy A. Bonnin ◽  
Elodie Creton ◽  
Jose María Navarro Marí ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Opportunistic Pathogen ◽  
Draft Genome Sequence ◽  
Content Type ◽  
Total Length

ABSTRACT Here, we provide the first draft genome sequence of NDM-1-producing Leclercia adecarboxylata, a human-opportunistic pathogen. The draft genome sequence consists of a total length of 5.13 Mbp, with an average G+C content of 55.2%.

scholarly journals Complete Genome Sequence of Multidrug-Resistant Strain Nocardia wallacei FMUON74, Isolated from a Sputum Culture

2020 ◽  
Vol 9 (47) ◽  
Author(s):  
Masahiro Toyokawa ◽  
Makoto Taniguchi ◽  
Kazuma Uesaka ◽  
Keiko Nishimura
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Resistant Strain ◽  
Complete Genome ◽  
Hybrid Approach ◽  
Multidrug Resistant ◽  
Content Type ◽  
Short Read Sequencing ◽  
Long Read ◽  
Multidrug Resistant Strain

ABSTRACT Nocardia wallacei is one of the members of the N. transvalensis complex which possess a highly unique susceptibility pattern. Here, we describe the closed complete genome sequence of the multidrug-resistant strain N. wallacei FMUON74, which was obtained using a hybrid approach combining Nanopore long-read sequencing and Illumina and DNBseq short-read sequencing.

scholarly journals Chromosome-Scale Assembly of the Complete Genome Sequence of Porcisia hertigi, Isolate C119, Strain LV43

2021 ◽  
Vol 10 (41) ◽  
Author(s):  
Hatim Almutairi ◽  
Michael D. Urbaniak ◽  
Michelle D. Bates ◽  
Waleed S. Al-Salem ◽  
Rod J. Dillon ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Content Type ◽  
Long Read ◽  
Central Panama

Porcisia hertigi is a parasitic kinetoplastid first isolated from porcupines ( Coendou rothschildi ) in central Panama in 1965. We present the complete genome sequence of P. hertigi , isolate C119, strain LV43, sequenced using combined short- and long-read technologies. This complete genome sequence will contribute to our knowledge of the parasitic genus Porcisia .

scholarly journals Complete Genome Sequence of Klebsiella aerogenes Myophage Metamorpho

2021 ◽  
Vol 10 (5) ◽  
Author(s):  
Kyra E. Groover ◽  
Kameron Garza ◽  
James Clark ◽  
Isla Hernandez ◽  
Jason J. Gill ◽  
...  
Keyword(s):  
Antibiotic Treatment ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Opportunistic Pathogen ◽  
Hospitalized Patients ◽  
Klebsiella Aerogenes ◽  
Content Type

ABSTRACT The bacterium Klebsiella aerogenes is an opportunistic pathogen that often infects hospitalized patients and those who are immunocompromised. K. aerogenes in some cases can become resistant to antibiotic treatment. Being a potential therapeutic, Metamorpho is a T4-like myophage targeting K. aerogenes.

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