PXD008065
PXD008065 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Protein ID of ϕXacN1 |
Description | ϕXacN1 is a novel jumbo myovirus infecting the causative agent of Asian citrus canker, Xanthomonas citri. Its linear 384,670 bp double-stranded DNA genome encodes 592 predicted protein coding genes and shows 65,875 bp direct terminal repeats (DTRs), so far the longest DTRs among sequence phage genomes. The DTRs harbor 56 tRNA genes, corresponding to all 20 amino acids. This is the highest number of tRNA genes reported in a phage genome. Codon usage analyses revealed a propensity that the phage encoded tRNAs target codons that are highly used by the phage but less frequently by its host. The existence of these tRNA genes, additional seven translation-related genes as well as a chaperonin gene found in the ϕXacN1 genome suggests an increased level of independence of phage replication on host molecular machinery and a wide host range. Consistently, ϕXacN1 showed a wider host range than other X. citri phages in an infection test against a panel of X. citri strains. Phylogenetic analyses revealed a clade of phages composed of ϕXacN1 and ten other jumbo phages showing an evolutionary stability in their large genome sizes. |
HostingRepository | jPOST |
AnnounceDate | 2018-10-30 |
AnnouncementXML | Submission_2022-09-18_03:41:21.831.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Miyako Nakano |
SpeciesList | scientific name: cellular organisms; NCBI TaxID: 131567; |
ModificationList | S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; unknown modification |
Instrument | LTQ Orbitrap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2017-10-30 01:49:05 | ID requested | |
1 | 2018-10-29 08:00:10 | announced | |
2 | 2021-02-04 16:51:55 | announced | 2021-02-04: Updated FTP location. |
⏵ 3 | 2022-09-18 03:41:22 | announced | 2022-09-18: Updated FTP location. |
Publication List
Yoshikawa G, Askora A, Blanc-Mathieu R, Kawasaki T, Li Y, Nakano M, Ogata H, Yamada T, Xanthomonas citri jumbo phage XacN1 exhibits a wide host range and high complement of tRNA genes. Sci Rep, 8(1):4486(2018) [pubmed] |
Keyword List
submitter keyword: Xanthomonas citri, ϕXacN1, jumbo phage, |
Contact List
Takashi Yamada | |
---|---|
lab head | |
Miyako Nakano | |
contact affiliation | Hiroshima University |
dataset submitter |
Full Dataset Link List
jPOST dataset URI |
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.jpostdb.org/JPST000339/ |