NDLI: Analysis of the complete chloroplast genome of Castanea pumila var. pumila, the Allegheny chinkapin

Content Provider	Springer Nature Link
Author	Dane, Fenny Wang, Zhuoyu Goertzen, Leslie
Copyright Year	2015
Abstract	The complete plastid genome of Castanea pumila L. Mill. var. pumila, the Allegheny chinkapin, was generated using next-generation sequencing of the leaf transcriptome of the species and fill-ins of missing regions via Sanger sequencing. The chloroplast (cp) genome of C. pumila showed high homology (99.8 %) to the genome of Castanea mollissima (the Chinese chestnut, 600,799 bp) in overall gene organization and size (160, 603 bp). Castanea dentata 454 sequence data ( www.fagaceae.org ) were used to generate a partial chloroplast genome of the American chestnut (93 % coverage). Comparisons of the cp genomes of the American and Chinese Castanea species indicated that the species shared 68.0 % of the mutations at coding and intronic regions, while 18.0 % of the mutations were specific to C. pumila and 13.9 % to C. dentata. The loss and nuclear localization of the rpl22 gene was similarly a feature of the genome of the American Castanea species. Since a higher number of mutational events separated C. pumila from C. mollissima, a more recent divergence of C. dentata from a common ancestor was hypothesized.
Starting Page	1
Ending Page	6
Page Count	6
File Format	PDF
ISSN	16142942
Journal	Tree Genetics & Genomes
Volume Number	11
Issue Number	1
e-ISSN	16142950
Language	English
Publisher	Springer Berlin Heidelberg
Publisher Date	2015-02-04
Publisher Place	Berlin, Heidelberg
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Castanea pumila var. pumila Castanea dentata Castanea mollissima American chestnut Chinese chestnut Allegheny chinkapin cp genome Forestry Plant Genetics & Genomics Plant Breeding/Biotechnology Tree Biology Biotechnology
Content Type	Text
Resource Type	Article
Subject	Genetics Molecular Biology Horticulture Forestry

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

Comparative chloroplast and nuclear DNA analysis of Castanea species in the southern region of the USA

A physical map of the Chinese chestnut (Castanea mollissima) genome and its integration with the genetic map

Data from: Genome-wide sequence-based genotyping supports a nonhybrid origin of Castanea alabamensis (Dataset)

A transcriptome-based genetic map of Chinese chestnut (Castanea mollissima) and identification of regions of segmental homology with peach (Prunus persica)

Comparison of the transcriptomes of American chestnut (Castanea dentata) and Chinese chestnut (Castanea mollissima) in response to the chestnut blight infection

A range wide geographic pattern of genetic diversity and population structure of Castanea mollissima populations inferred from nuclear and chloroplast microsatellites

Complete chloroplast genome sequence of pineapple (Ananas comosus)

Role of genomics in the potential restoration of the American chestnut

Genomic selection analyses reveal tradeoff between chestnut blight tolerance and genome inheritance from American chestnut (Castanea dentata) in (C. dentata x C. mollissima) x C. dentata backcross populations

Analysis of the complete chloroplast genome of Castanea pumila var. pumila, the Allegheny chinkapin

Similar Documents

Comparative chloroplast and nuclear DNA analysis of Castanea species in the southern region of the USA

A physical map of the Chinese chestnut (Castanea mollissima) genome and its integration with the genetic map

Data from: Genome-wide sequence-based genotyping supports a nonhybrid origin of Castanea alabamensis (Dataset)

A transcriptome-based genetic map of Chinese chestnut (Castanea mollissima) and identification of regions of segmental homology with peach (Prunus persica)

Comparison of the transcriptomes of American chestnut (Castanea dentata) and Chinese chestnut (Castanea mollissima) in response to the chestnut blight infection

A range wide geographic pattern of genetic diversity and population structure of Castanea mollissima populations inferred from nuclear and chloroplast microsatellites

Complete chloroplast genome sequence of pineapple (Ananas comosus)

Role of genomics in the potential restoration of the American chestnut

Genomic selection analyses reveal tradeoff between chestnut blight tolerance and genome inheritance from American chestnut (Castanea dentata) in (C. dentata x C. mollissima) x C. dentata backcross populations

Analysis of the complete chloroplast genome of Castanea pumila var. pumila, the Allegheny chinkapin