NDLI: A New Resource of Locally Transposed Dissociation Elements for Screening Gene-Knockout Lines in Silico on the Arabidopsis Genome1 [w]

Content Provider	PubMed Central
Author	Ito, Takuya Motohashi, Reiko Kuromori, Takashi Saho, Mizukado Sakurai, Tetsuya Kanahara, Hiroko Seki, Motoaki Shinozaki, Kazuo
Copyright Year	2002
Abstract	We transposed Dissociation (Ds) elements from three start loci on chromosome 5 in Arabidopsis (Nossen ecotype) by using a local transposition system. We determined partial genomic sequences flanking the Ds elements and mapped the elements' insertion sites in 1,173 transposed lines by comparison with the published genomic sequence. Most of the lines contained a single copy of the Ds element. One-half of the lines contained Ds on chromosome 5; in particular, insertion “hot spots” near the three start loci were clearly observed. In the other lines, the Ds elements were transposed across chromosomes. We found other insertion hot spots at the tops of chromosomes 2 and 4, near nucleolus organizer regions 2 and 4, respectively. Another characteristic feature was that the Ds elements tended to transpose near the chromosome ends and rarely transposed near centromeres. The distribution patterns differed among the three start loci, even though they possessed the same Ds construct. More than one-half of the Ds elements were inserted irregularly into the genome; that is, they did not retain the perfect inverted repeat sequence of Ds nor leave perfect target site duplications. This precise analysis of distribution patterns will contribute to a comprehensive understanding of the transposing mechanism. From these Ds insertion sites, we have constructed a database for screening gene-knockout mutants in silico. In 583 of the 1,173 lines, the Ds elements were inserted into protein-coding genes, which suggests that these lines are gene-knockout mutants. The database and individual lines will be available freely for academic use from the RIKEN Bio-Resource Center (http://www.brc.riken.go.jp/Eng/index.html).
Related Links	http://dx.doi.org/10.1104/pp.002774
Ending Page	1699
Page Count	5
Starting Page	1695
File Format	PDF
ISSN	00320889
e-ISSN	15322548
Journal	Plant Physiology
Issue Number	4
Volume Number	129
Language	English
Publisher	American Society of Plant Physiologists
Publisher Date	2002-08-01
Access Restriction	Open
Rights Holder	American Society of Plant Physiologists
Subject Keyword	Plant Science Genetics Physiology Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Genetics Physiology Plant Science

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

A Resource of Mapped Dissociation Launch Pads for Targeted Insertional Mutagenesis in the Arabidopsis Genome1

AGRONOMICS1: A New Resource for Arabidopsis Transcriptome Profiling1 [W] [OA]

Metabolomic Characterization of Knockout Mutants in Arabidopsis: Development of a Metabolite Profiling Database for Knockout Mutants in Arabidopsis 1 [W] [OPEN]

Annotation of the Arabidopsis Genome1

Structure and Architecture of the Maize Genome1 [W]

The Arabidopsis Unannotated Secreted Peptide Database, a Resource for Plant Peptidomics[W]

Sequence and Comparative Analysis of the Maize NB Mitochondrial Genome1 [w]

Genome-Wide Distribution of Transposed Dissociation Elements in Maize [W] [OA]

Arabidopsis MPSS. An Online Resource for Quantitative Expression Analysis1 [w]

A New Resource of Locally Transposed Dissociation Elements for Screening Gene-Knockout Lines in Silico on the Arabidopsis Genome1 [w]

Similar Documents

A Resource of Mapped Dissociation Launch Pads for Targeted Insertional Mutagenesis in the Arabidopsis Genome1

AGRONOMICS1: A New Resource for Arabidopsis Transcriptome Profiling1 [W] [OA]

Metabolomic Characterization of Knockout Mutants in Arabidopsis: Development of a Metabolite Profiling Database for Knockout Mutants in Arabidopsis 1 [W] [OPEN]

Annotation of the Arabidopsis Genome1

Structure and Architecture of the Maize Genome1 [W]

The Arabidopsis Unannotated Secreted Peptide Database, a Resource for Plant Peptidomics[W]

Sequence and Comparative Analysis of the Maize NB Mitochondrial Genome1 [w]

Genome-Wide Distribution of Transposed Dissociation Elements in Maize [W] [OA]

Arabidopsis MPSS. An Online Resource for Quantitative Expression Analysis1 [w]

A New Resource of Locally Transposed Dissociation Elements for Screening Gene-Knockout Lines in Silico on the Arabidopsis Genome1 [w]