Chloroplasts are semiautonomous organelles having their own genome and considered to be derived from cyanobacteria through endosymbiosis. Apart from their well-known function of photosynthesis, i.e. the conversion of light energy to chemical energy, chloroplasts are known to play a role in the synthesis of starch, fatty acids, pigments and amino acids.
A comprehensive online database of all SSRs (Simple Sequence Repeats) or STRs (Short Tandem Repeats) or Microsatellites from all sequenced Chloroplast and Mitochondrial genomes available so far across all the clades of life. SSRs are considered as important genomic elements and play a major role in the understanding the underpinnings of the evolution, linkage analysis and species discrimination. ChloroMitoSSRDB 2.0 provides a wide accessible platform for accessing the microsatellites patterns using the IMEx (Imperfect Microsatellite Extractor) and MISA and along with the primer pair information for the same. Additionally, the present version of the web-servers also allows the users to analyze the whole genome, genes and also NGS reads for the identification of the SSRs.
Provides information of all the three types (perfect, imperfect and compound) of simple sequence repeats (SSRs). In accordance with the growing interest in SSR studies, ChloroSSRdb will prove to be a useful resource in developing genetic markers, phylogenetic analysis, genetic mapping, etc. Moreover, it will serve as a ready reference for mined SSRs in available chloroplast genomes of green plants. ChloroSSRdb is a relational database developed using SQL server 2008 and accessed through ASP.NET.
Provides chloroplast genome sequences. GenomeTrakrCP contains plants involved in foods and dietary supplements, toxin producers, common contaminants and adulterants, and their close relatives. It offers about 40 species with whole chloroplast genome data. This database was created with data that come from the US Food and Drug Administration.
An interactive, web-based database for fully sequenced plastid genomes, containing genomic, protein, DNA and RNA sequences, gene locations, RNA-editing sites, putative protein families and alignments. Over the next few years, as the number of sequenced chloroplast genomes increases rapidly, the tools available in ChloroplastDB will allow researchers to easily identify and compile target data for comparative analysis of chloroplast genes and genomes.
Provides access to information about plant organelles. PODB consists of six individual units; namely, the electron micrograph database, the perceptive organelles database, the organelles movie database, the organellome database, the functional analysis database and a compilation of external links to pertinent databases and homepages. The database can be useful for those who wish to explore the basics of plant organelles research.
A database-driven suite of tools for annotation, alignment, and tree estimation of chloroplast genomes in a web-based platform. Verdant provides a number of key features designed for usability, including: automated annotation of both whole and partial plastomes for protein coding genes, phylogeny estimation, annotation visualization and downloadable datasets of aligned and unaligned plastome region. Verdant sharply reduces the time required for analysis of assembled chloroplast genomes and removes the need for pipelines and software on personal hardware.
Provides access to the complete chloroplast (cp) genome of Ziziphus jujube. Ziziphus jujube chloroplast is a genetic resource that can be used to conduct population studies of Ziziphus Mill. and help shed light on genetic and evolutionary mechanisms. The data was reported using next-generation pyrosequencing and comparative analysis. The database can facilitate the biological study of these economic plants.