Literature summary for 2.7.7.B22 extracted from

Gomes-Filho, J.V.; Zaramela, L.S.; Italiani, V.C.; Baliga, N.S.; Vencio, R.Z.; Koide, T.
Sense overlapping transcripts in IS1341-type transposase genes are functional non-coding RNAs in archaea (2015), RNA Biol., 12, 490-500.

Search for more literature for 2.7.7.B22

Cloned(Commentary)

Cloned (Comment)	Organism
DNA sequence determination and analysis of several IS1341-type transposases (tnpB genes), existence of sense overlapping transcripts (sotRNAs) for all IS1341-type transposases in Halobacterium salinarum strain NRC-1, condition-dependent differential regulation between sotRNAs and their cognate genes. Identification of a UUCA tetraloop motif that is present in other archaea (ncRNA family HgcC) and in a Halobacterium salinarum intergenic ncRNA derived from a palindrome associated transposable elements (PATE). Overexpression of one sotRNA and the PATE-derived RNA harboring the tetraloop motif improves Halobacterium salinarum growth, indicating that these ncRNAs are functional. IS1341-type transposase genes harbor the right end (RE) of the IS element, which may explain the sotRNA motifs found as a retained structure formed at DNA level, also stable at RNA level, i.e. the RE-like tetraloop	Halobacterium salinarum

Cloned (Comment)

Organism

DNA sequence determination and analysis of several IS1341-type transposases (tnpB genes), existence of sense overlapping transcripts (sotRNAs) for all IS1341-type transposases in Halobacterium salinarum strain NRC-1, condition-dependent differential regulation between sotRNAs and their cognate genes. Identification of a UUCA tetraloop motif that is present in other archaea (ncRNA family HgcC) and in a Halobacterium salinarum intergenic ncRNA derived from a palindrome associated transposable elements (PATE). Overexpression of one sotRNA and the PATE-derived RNA harboring the tetraloop motif improves Halobacterium salinarum growth, indicating that these ncRNAs are functional. IS1341-type transposase genes harbor the right end (RE) of the IS element, which may explain the sotRNA motifs found as a retained structure formed at DNA level, also stable at RNA level, i.e. the RE-like tetraloop

Halobacterium salinarum

Localization

Localization	Comment	Organism	GeneOntology No.	Textmining
nucleus	-	Halobacterium salinarum	5634	-

Organism

Organism	UniProt	Comment	Textmining
Halobacterium salinarum	-	-	-
Halobacterium salinarum NRC 1	-	-	-

Synonyms

Synonyms	Comment	Organism
IS1341-type transposase	-	Halobacterium salinarum

General Information

General Information	Comment	Organism
evolution	the IS1341-type transposase is part of the widespread IS200/605 family, the most ancient family in the archaeal domain of life. Presence in Halobacterium salinarum strain NRC-1 of a probable sotRNA in a nonfunctional IS1341-type transposase gene, a truncated small 120 bp long pseudogene identical to OE5220R, suggests that sotRNA presence may somehow be the reason why these defective elements have not been lost from the genomes	Halobacterium salinarum