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Chloroplast simple sequence repeats (cpSSRs): technical resources and recommendations for expanding cpSSR discovery and applications to a wide array of plant species
1 of 78 checkable references need attention · checked 2026-07-22
At the dated check, the references listed below either did not resolve in Crossref or DataCite, or carried a retraction notice. Each one is shown with the registry record that put it there.
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References needing attention
does not resolve to a known work10.2307/2445483
The 77 checked references that resolve
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A set of primers for length and nucleotide‐substitution polymorphism in chloroplastic DNA of <i>Olea europaea</i> L. (Oleaceae)
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Polymorphic simple sequence repeat markers in chloroplast genomes of Solanaceous plants
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Detection of haplotypic variation and natural hybridization in <i>halepensis</i>‐complex pine species using chloroplast simple sequence repeat (SSR) markers
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Inter- and intraspecific polymorphism at chloroplast SSR loci and the inheritance of plastids in Pinus radiata D. Don
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Bayesian inference of evolutionary history from chloroplast microsatellites in the cosmopolitan weed <i>Capsella bursa</i>‐<i>pastoris</i> (Brassicaceae)
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The Chloroplast Genome of Phalaenopsis aphrodite (Orchidaceae): Comparative Analysis of Evolutionary Rate with that of Grasses and Its Phylogenetic Implications
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A set of primers for analyzing chloroplast DNA diversity in Citrus and related genera
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Sequencing cucumber (Cucumis sativus L.) chloroplast genomes identifies differences between chilling-tolerant and -susceptible cucumber lines
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The development and evaluation of consensus chloroplast primer pairs that possess highly variable sequence regions in a diverse array of plant taxa
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Genetic variation and relationships among <i>Ulex</i> (Fabaceae) species in southern Spain and northern Morocco assessed by chloroplast microsatellite (cpSSR) markers
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Complete chloroplast genome sequences of Solanum bulbocastanum, Solanum lycopersicum and comparative analyses with other Solanaceae genomes
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Laboratory temperature variation is a previously unrecognized source of genotyping error during capillary electrophoresis
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A set of primers for the amplification of chloroplast microsatellites in <i>Quercus</i>
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A set of universal primers for amplification of polymorphic non‐coding regions of mitochondrial and chloroplast DNA in plants
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Identification and evaluation of chloroplast uni- and trinucleotide sequence repeats in citrus
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Size homoplasy in chloroplast microsatellites of wild perennial relatives of soybean (Glycine subgenus Glycine)
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Sequencing goes 454 and takes large‐scale genomics into the wild
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Plastid genome characterisation in Brassica and Brassicaceae using a new set of nine SSRs
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Genome walking with consensus primers: application to the large single copy region of chloroplast DNA
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Causes of Size Homoplasy Among Chloroplast Microsatellites in Closely Related Clusia Species
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Developmental Validation of a <i>Cannabis sativa</i> STR Multiplex System for Forensic Analysis
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Sequencing breakthroughs for genomic ecology and evolutionary biology
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Microsatellites and microsynteny in the chloroplast genomes of Oryza and eight other Gramineae species
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Evaluation of allelic diversity at chloroplast microsatellite loci among common wheat and its ancestral species
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Evolution of chloroplast mononucleotide microsatellites in Arabidopsis thaliana
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Heterologous nuclear and chloroplast microsatellite amplification and variation in tea,<i>Camellia sinensis</i>
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The Evolution of Non-Coding Chloroplast DNA and Its Application in Plant Systematics
resolves10.1186/1741-7007-5-2
A clade uniting the green algae Mesostigma viride and Chlorokybus atmophyticus represents the deepest branch of the Streptophyta in chloroplast genome-based phylogenies
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Genetic structure and reproduction dynamics of <i>Salix reinii</i> during primary succession on Mount Fuji, as revealed by nuclear and chloroplast microsatellite analysis
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Long‐term population isolation in the endangered tropical tree species <i>Caesalpinia echinata</i> Lam. revealed by chloroplast microsatellites
resolves10.1016/S0169-5347(00)89052-7
The use of chloroplast DNA polymorphism in studies of gene flow in plants
resolves10.1111/j.1471-8286.2006.01267.x
Development and testing of novel chloroplast microsatellite markers for <i>Lolium perenne</i> and other grasses (Poaceae) from <i>de novo</i> sequencing and <i>in silico</i> sequences
resolves10.1046/j.1095-8339.2003.00221.x
Morphometric, AFLP and plastid microsatellite variation in populations of Scalesia divisa and S. incisa (Asteraceae) from the Galápagos Islands
resolves10.1007/s00122-004-1895-2
Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes
resolves10.1093/oxfordjournals.molbev.a025856
Cross-species amplification of soybean (Glycine max) simple sequence repeats (SSRs) within the genus and other legume genera: implications for the transferability of SSRs in plants
resolves10.1111/j.1471-8286.2005.01155.x
<scp>genalex</scp> 6: genetic analysis in Excel. Population genetic software for teaching and research
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INVITED REVIEW: Comparative organization of chloroplast, mitochondrial and nuclear diversity in plant populations
resolves10.1016/S0960-9822(95)00206-5
Hypervariable microsatellites provide a general source of polymorphic DNA markers for the chloroplast genome
resolves10.1073/pnas.92.17.7759
Polymorphic simple sequence repeat regions in chloroplast genomes: applications to the population genetics of pines.
resolves10.1046/j.1365-294X.2000.105316.x
Novel chloroplast microsatellites reveal cytoplasmic variation in <i>Arabidopsis thaliana</i>
resolves10.1111/j.1471-8286.2004.00636.x
Universal primers for the amplification of chloroplast microsatellites in grasses (Poaceae)
resolves10.1098/rspb.1996.0187
DNA fingerprints of rice (<i>Oryza sativa</i>) obtained from hypervariable chloroplast simple sequence repeats
resolves10.1007/BF01089230
Analysis of the genusZea (Poaceae) using polymorphic chloroplast simple sequence repeats
resolves10.1111/j.1365-294X.2004.02384.x
Tracking the invasive history of the green alga <i>Codium fragile</i> ssp. <i>tomentosoides</i>
resolves10.1098/rspb.1999.0683
An extreme cytoplasmic bottleneck in the modern European cultivated potato (Solanum tuberosum) is not reflected in decreased levels of nuclear diversity
resolves10.1016/S0169-5347(00)02097-8
Chloroplast microsatellites: new tools for studies in plant ecology and evolution
resolves10.1046/j.1365-294X.1999.00545.x
Polymorphic chloroplast simple sequence repeat primers for systematic and population studies in the genus <i>Hordeum</i>
resolves10.1098/rspb.1998.0491
Gene–pool variation in Caledonian and European Scots pine (Pinus sylvestris L.) revealed by chloroplast simple–sequence repeats
resolves10.1007/s10592-007-9338-7
The importance of reproductive strategies in population genetic approaches to conservation: an example from the marine angiosperm genus Zostera
resolves10.1046/j.1471-8278.2001.00031.x
A set of primers for amplification of noncoding regions of chloroplast DNA in the grasses
resolves10.1126/science.1087835
The Chemistry of Sexual Deception in an Orchid-Wasp Pollination System
resolves10.1111/j.1471-8286.2004.00635.x
A new set of mono‐ and dinucleotide chloroplast microsatellites in Fagaceae
resolves10.3732/ajb.92.1.142
The tortoise and the hare II: relative utility of 21 noncoding chloroplast DNA sequences for phylogenetic analysis
resolves10.3732/ajb.94.3.275
Comparison of whole chloroplast genome sequences to choose noncoding regions for phylogenetic studies in angiosperms: the tortoise and the hare III
resolves10.1111/j.1095-8339.2003.00265.x
Genetic discontinuities among populations of Cleistes (Orchidaceae, Vanilloideae) in North America
resolves10.1007/978-1-4615-3276-7_6
Intraspecific Chloroplast DNA Variation: Systematic and Phylogenetic Implications
resolves10.1111/j.1471-8286.2005.00981.x
A set of chloroplast microsatellite primers for <i>Eucalyptus</i> (Myrtaceae)
resolves10.1007/BF00037152
Universal primers for amplification of three non-coding regions of chloroplast DNA
resolves10.1007/s10592-005-9011-y
Genetic diversity and differentiation of the endangered Japanese endemic tree Magnolia stellata using nuclear and chloroplast microsatellite markers
resolves10.1111/j.1365-294X.1996.tb00353.x
A set of primers for the amplification of 20 chloroplast microsatellites in <i>Pinaceae</i>
resolves10.1139/g97-811
Characterisation and inheritance of polymorphic plastid microsatellites in<i>Abies</i>
resolves10.1111/j.1365-294X.2008.03666.x
Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing
resolves10.1139/g03-068
Development and characterization of chloroplast microsatellite markers in<i>Macaranga</i>(Euphorbiaceae)
resolves10.1139/g98-104
A set of conserved PCR primers for the analysis of simple sequence repeat polymorphisms in chloroplast genomes of dicotyledonous angiosperms
resolves10.1073/pnas.84.24.9054
Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs.
resolves10.1111/j.1365-294X.2005.02441.x
Cytoplasmic and nuclear markers reveal contrasting patterns of spatial genetic structure in a natural<i>Ipomopsis</i>hybrid zone
resolves10.2307/2656654
Population‐specific gender‐biased hybridization between <i>Dryopteris intermedia</i> and <i>D. carthusiana</i>: evidence from chloroplast DNA
The 4 references without a DOI — listed, not checked
no DOI — not checkedChloroplast simple sequence repeat (cpSSRs) markers for evolutionary studies in the sexually deceptive orchid genus Chiloglottis
no DOI — not checkedA new set of universal de novo sequencing primers for extensive coverage of non‐coding chloroplast DNA: new opportunities for phylogenetic studies and cpSSR discovery
no DOI — not checkedThe use of chloroplast DNA to resolve plant phylogenies — noncoding versus rbcL sequences
no DOI — not checkedFour primer pairs for the amplification of chloroplast intergenic regions with intraspecific variation
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