|
1
|
Bailey DS, Dotson DR, Berkes C, Agbede O, Augustin M, Blackman-Murray I, Chambers T, Felber N, Fleming D, Frazier L, Gray N, Harrison A, Hernandez G, Iwuchukwu N, Iwuji C, Jackson T, Jefferson A, Jordan D, Jordan M, Nicolas B, Person M, Richardson G, Roman A, Stevens C, Suggs M, Thompson N, Timmons-Smith S, Wilfong S, Wilson-Wheatley M. Complete genome sequence of Mycobacterium smegmatis phage Rummer, a subcluster A3 actinophage. Microbiol Resour Announc 2024; 13:e0126823. [PMID: 38466105 PMCID: PMC11008113 DOI: 10.1128/mra.01268-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Accepted: 02/22/2024] [Indexed: 03/12/2024] Open
Abstract
Bacteriophage Rummer is a siphovirus morphology actinophage isolated from Mycobacterium smegmatis. Rummer has a 50,908 base pair genome encoding 89 predicted protein-coding genes and three tRNAs. Based on gene content similarity to sequenced actinobacteriophages, Rummer is assigned to phage subcluster A3.
Collapse
Affiliation(s)
- Dondra S. Bailey
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Dominique R. Dotson
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Charlotte Berkes
- Department of Biology, Merrimack College, North Andover, Massachusetts, USA
| | - Oluwanifemi Agbede
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Marcelaine Augustin
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | | | - Talaeya Chambers
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Nicolas Felber
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Dy'Mon Fleming
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Loretta Frazier
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Natalie Gray
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Ayanna Harrison
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Genesis Hernandez
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Nina Iwuchukwu
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Chika Iwuji
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Taysha Jackson
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Angelic Jefferson
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Daya Jordan
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Miracle Jordan
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Brian Nicolas
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Monae Person
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Ga'Nayah Richardson
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Ashley Roman
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Christian Stevens
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - My'Sean Suggs
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Nahshon Thompson
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Summer Timmons-Smith
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | - Shiaishea Wilfong
- Department of Natural Sciences, Coppin State University, Baltimore, Maryland, USA
| | | |
Collapse
|
|
2
|
Sasaoka A, Arellano O, Hatch XR, Garcia Costas AM. Genome sequence of bacteriophage Aoka, a cluster FO phage isolated using Arthrobacter globiformis. Microbiol Resour Announc 2023; 12:e0045423. [PMID: 37737618 PMCID: PMC10586098 DOI: 10.1128/mra.00454-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Accepted: 08/03/2023] [Indexed: 09/23/2023] Open
Abstract
We report the discovery and genome sequence of bacteriophage Aoka, an actinobacteriophage isolated from a soil sample in Pueblo, Colorado using Arthrobacter globiformis, B2880-SEA. Its genome length is 36,744 base pairs with 54 protein-coding genes. Based on gene content similarity to other actinobacteriophages, Aoka is assigned to cluster FO.
Collapse
Affiliation(s)
- Aidan Sasaoka
- Department of Biology, Colorado State University-Pueblo, Pueblo, Colorado, USA
| | - Olivia Arellano
- Department of Biology, Colorado State University-Pueblo, Pueblo, Colorado, USA
| | - Xavier R. Hatch
- Department of Biology, Colorado State University-Pueblo, Pueblo, Colorado, USA
| | | |
Collapse
|
|
3
|
Gosselin SP, Arsenault DR, Jennings CA, Gogarten JP. The Evolutionary History of a DNA Methylase Reveals Frequent Horizontal Transfer and Within-Gene Recombination. Genes (Basel) 2023; 14. [PMID: 36833214 DOI: 10.3390/genes14020288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Revised: 01/13/2023] [Accepted: 01/19/2023] [Indexed: 01/26/2023] Open
Abstract
Inteins, often referred to as protein introns, are highly mobile genetic elements that invade conserved genes throughout the tree of life. Inteins have been found to invade a wide variety of key genes within actinophages. While in the process of conducting a survey of these inteins in actinophages, we discovered that one protein family of methylases contained a putative intein, and two other unique insertion elements. These methylases are known to occur commonly in phages as orphan methylases (possibly as a form of resistance to restriction-modification systems). We found that the methylase family is not conserved within phage clusters and has a disparate distribution across divergent phage groups. We determined that two of the three insertion elements have a patchy distribution within the methylase protein family. Additionally, we found that the third insertion element is likely a second homing endonuclease, and that all three elements (the intein, the homing endonuclease, and what we refer to as the ShiLan domain) have different insertion sites that are conserved in the methylase gene family. Furthermore, we find strong evidence that both the intein and ShiLan domain are partaking in long-distance horizontal gene transfer events between divergent methylases in disparate phage hosts within the already dispersed methylase distribution. The reticulate evolutionary history of methylases and their insertion elements reveals high rates of gene transfer and within-gene recombination in actinophages.
Collapse
|