Chloroplast genome assemblies and comparative analyses of commercially important Vaccinium berry crops

Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulterat...

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Published inScientific reports Vol. 12; no. 1; pp. 21600 - 13
Main Authors Fahrenkrog, Annette M., Matsumoto, Gabriel O., Toth, Katalin, Jokipii-Lukkari, Soile, Salo, Heikki M., Häggman, Hely, Benevenuto, Juliana, Munoz, Patricio R.
Format Journal Article
LanguageEnglish
Published London Nature Publishing Group UK 14.12.2022
Nature Publishing Group
Nature Portfolio
Subjects
631/181/757
631/208/212/748
631/208/514/1948
631/208/711
631/208/721
631/449/2492
Blueberry Plants - genetics
Chloroplasts
Chloroplasts - genetics
Comparative analysis
Conserved sequence
Copy number
Crops
Crops, Agricultural - genetics
DNA Copy Number Variations
Domestication
Economic importance
Evolutionary conservation
Fruit
Fruits
Genetic engineering
Genetically altered foods
Genome, Chloroplast
Humanities and Social Sciences
Hybridization
Hybrids
multidisciplinary
Phylogenetics
Phylogeny
Plastomes
Polyploidy
Science
Science (multidisciplinary)
Shrubs
Simple sequence repeats
Single-nucleotide polymorphism
Synteny
Vaccinium
Vaccinium angustifolium
Vaccinium corymbosum
Vaccinium myrtillus
Vaccinium virgatum
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Abstract Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry ( V. corymbosum ), southern highbush blueberry ( V. corymbosum hybrids), rabbiteye blueberry ( V. virgatum ), lowbush blueberry ( V. angustifolium ), and bilberry ( V. myrtillus ). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.
AbstractList Abstract Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry (V. corymbosum), southern highbush blueberry (V. corymbosum hybrids), rabbiteye blueberry (V. virgatum), lowbush blueberry (V. angustifolium), and bilberry (V. myrtillus). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.
Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry ( V. corymbosum ), southern highbush blueberry ( V. corymbosum hybrids), rabbiteye blueberry ( V. virgatum ), lowbush blueberry ( V. angustifolium ), and bilberry ( V. myrtillus ). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.
Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry (V. corymbosum), southern highbush blueberry (V. corymbosum hybrids), rabbiteye blueberry (V. virgatum), lowbush blueberry (V. angustifolium), and bilberry (V. myrtillus). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry (V. corymbosum), southern highbush blueberry (V. corymbosum hybrids), rabbiteye blueberry (V. virgatum), lowbush blueberry (V. angustifolium), and bilberry (V. myrtillus). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.
Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization events, the taxonomy of this genus has remained the subject of long debate. In addition, berries and berry-based products are liable to adulteration, either fraudulent or unintentional due to misidentification of species. The availability of more genomic information could help achieve higher phylogenetic resolution for the genus, provide molecular markers for berry crops identification, and a framework for efficient genetic engineering of chloroplasts. Therefore, in this study we assembled five Vaccinium chloroplast sequences representing the economically relevant berry types: northern highbush blueberry (V. corymbosum), southern highbush blueberry (V. corymbosum hybrids), rabbiteye blueberry (V. virgatum), lowbush blueberry (V. angustifolium), and bilberry (V. myrtillus). Comparative analyses showed that the Vaccinium chloroplast genomes exhibited an overall highly conserved synteny and sequence identity among them. Polymorphic regions included the expansion/contraction of inverted repeats, gene copy number variation, simple sequence repeats, indels, and single nucleotide polymorphisms. Based on their in silico discrimination power, we suggested variants that could be developed into molecular markers for berry crops identification. Phylogenetic analysis revealed multiple origins of highbush blueberry plastomes, likely due to the hybridization events that occurred during northern and southern highbush blueberry domestication.
ArticleNumber 21600
Author Jokipii-Lukkari, Soile
Häggman, Hely
Benevenuto, Juliana
Fahrenkrog, Annette M.
Munoz, Patricio R.
Toth, Katalin
Salo, Heikki M.
Matsumoto, Gabriel O.
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BackLink https://www.ncbi.nlm.nih.gov/pubmed/36517490$$D View this record in MEDLINE/PubMed
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Cites_doi 10.17660/ActaHortic.2009.810.24
10.1111/2041-210X.12410
10.17660/ActaHortic.1977.61.3
10.21273/HORTSCI.36.2.213
10.1109/IPDPS.2002.1016585
10.1038/s41438-019-0191-x
10.3390/genes10040291
10.1186/1471-2105-13-238
10.1371/journal.pone.0079685
10.1101/gr.9.9.868
10.1093/nar/gkx391
10.1093/molbev/msaa015
10.1371/journal.pone.0112963
10.1007/s11295-012-0573-9
10.21273/JASHS.133.3.427
10.1146/annurev.ge.19.120185.001545
10.1080/23802359.2021.1935351
10.1371/journal.pcbi.1005944
10.1093/bioinformatics/btx198
10.1038/srep30042
10.1111/pbi.13556
10.1111/1541-4337.12811
10.1089/cmb.2012.0021
10.1093/bioinformatics/btq033
10.3732/ajb.89.2.327
10.1080/15538362.2011.619429
10.1080/23802359.2021.2009384
10.1093/gigascience/giab008
10.1093/gigascience/giz012
10.1080/23802359.2019.1579067
10.1007/s00294-015-0495-9
10.1093/bioinformatics/btp324
10.1139/g84-025
10.7287/peerj.preprints.1355v1
10.1093/sysbio/syu054
10.1186/s12864-018-5348-8
10.1093/bioinformatics/bty220
10.6026/97320630016171
10.1093/nar/gkh458
10.17660/ActaHortic.2009.810.2
10.3732/ajb.1500299
10.1016/S0168-9525(00)02024-2
10.3390/foods11101476
10.1093/oxfordjournals.molbev.a026334
10.1186/s13059-016-1004-2
10.1186/1471-2164-13-715
10.1101/gr.129684.111
10.3390/f11090927
10.1093/molbev/msx281
10.1007/s10722-016-0371-6
10.1186/s12870-020-02689-6
10.1093/nar/gkab301
10.1038/s41437-020-00362-0
10.1186/s13059-015-0849-0
10.1300/J301v03n03_01
10.2307/2804880
10.1111/j.1461-0248.2006.00889.x
10.1093/bioinformatics/btp352
10.7717/peerj.9048
10.1663/0006-8101(2002)068[0335:PCOEMA]2.0.CO;2
10.1101/gr.215087.116
10.1023/A:1002903609446
10.1080/23802359.2019.1627948
10.1080/23802359.2019.1624644
10.1093/bioinformatics/btg180
10.1007/s00122-006-0425-9
10.1093/bioinformatics/btu531
10.1186/1741-7007-7-84
10.1093/bioinformatics/btm404
10.1093/bioinformatics/btp373
10.1093/molbev/mst010
10.1093/nar/gkz238
10.1007/978-1-4020-6907-9
10.1016/j.ygeno.2017.08.001
10.1007/978-94-007-2920-9_5
10.1093/oxfordjournals.jhered.a105965
10.1093/bioinformatics/bts606
10.1093/nar/gkw1060
10.1007/s11032-014-0066-7
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References KimYShinJOhDRKimAYChoiCComparative analysis of complete chloroplast genome sequences and insertion-deletion (Indel) polymorphisms to distinguish five Vaccinium speciesForests20201111310.3390/f11090927
JakobssonMSällTLind-HalldénCHalldénCEvolution of chloroplast mononucleotide microsatellites in Arabidopsis thalianaTheor. Appl. Genet.20071142232351:CAS:528:DC%2BD28XhtlWntbrI10.1007/s00122-006-0425-9
HuntMCirclator: Automated circularization of genome assemblies using long sequencing readsGenome Biol.20151611010.1186/s13059-015-0849-0
MinhBQIQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic eraMol. Biol. Evol.202037153015341:CAS:528:DC%2BB3cXis1egsLbL10.1093/molbev/msaa015
Liu, C. et al. CpGAVAS, an integrated web server for the annotation, visualization, analysis, and GenBank submission of completely sequenced chloroplast genome sequences. BMC Genomics13 (2012).
CovilleFVHambidgeGImproving the wild blueberryUSDA Yearbook of Agriculture1937U.S. Govt. Printing Office559574
ZhengXA high-performance computing toolset for relatedness and principal component analysis of SNP dataBioinformatics201228332633281:CAS:528:DC%2BC38XhvVSmsrbI10.1093/bioinformatics/bts606
LyrenePMValue of various taxa in breeding tetraploid blueberries in FloridaEuphytica199794152210.1023/A:1002903609446
Clement, M., Snell, Q., Walker, P., Posada, D. & Crandall, K. TCS: Estimating gene genealogies. In Proceedings 16th International Parallel and Distributed Processing Symposium 184–190 (2002).
FajardoDComplete plastid genome sequence of Vaccinium macrocarpon: Structure, gene content, and rearrangements revealed by next generation sequencingTree Genet. Genomes2013948949810.1007/s11295-012-0573-9
LarssonAAliView: A fast and lightweight alignment viewer and editor for large datasetsBioinformatics201430327632781:CAS:528:DC%2BC28XhtFOrtb%2FM10.1093/bioinformatics/btu531
Vander KloetSPThe genus Vaccinium in North America1988Publication, Agriculture Canada
Magdy, M. et al. Pan-plastome approach empowers the assessment of genetic variation in cultivated Capsicum species. Hortic. Res.6, (2019).
BallingtonJRThe role of interspecific hybridization in blueberry improvementActa Hortic.2009810496010.17660/ActaHortic.2009.810.2
R Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. (2021). Available at: https://www.r-project.org/.
KatohKStandleyDMMAFFT multiple sequence alignment software version 7: Improvements in performance and usabilityMol. Biol. Evol.2013307727801:CAS:528:DC%2BC3sXksFWisLc%3D10.1093/molbev/mst010
WalkerJFJansenRKZanisMJEmeryNCSources of inversion variation in the small single copy (SSC) region of chloroplast genomesAm. J. Bot.2015102175117521:CAS:528:DC%2BC28XnvFCitbo%3D10.3732/ajb.1500299
HancockJLyrenePFinnCVorsaNLobosGHancockJBlueberries and cranberriesTemperate Fruit Crop Breeding2008Springer10.1007/978-1-4020-6907-9
HoangDTChernomorOVon HaeselerAMinhBQVinhLSUFBoot2: Improving the ultrafast bootstrap approximationMol. Biol. Evol.2018355185221:CAS:528:DC%2BC1cXitlyjs7rK10.1093/molbev/msx281
WangWAssembly of chloroplast genomes with long- and short-read data: A comparison of approaches using Eucalyptus pauciflora as a test caseBMC Genomics20181911510.1186/s12864-018-5348-8
DanecekPTwelve years of SAMtools and BCFtoolsGigascience202110141:CAS:528:DC%2BB3MXhsVaksLnM10.1093/gigascience/giab008
KoboldtDCVarScan: Variant detection in massively parallel sequencing of individual and pooled samplesBioinformatics200925228322851:CAS:528:DC%2BD1MXhtVeksr7O10.1093/bioinformatics/btp373
WalkerBJPilon: An integrated tool for comprehensive microbial variant detection and genome assembly improvementPLoS ONE20149e1129632014PLoSO...9k2963W10.1371/journal.pone.0112963
CastresanaJSelection of conserved blocks from multiple alignments for their use in phylogenetic analysisMol. Biol. Evol.2000175405521:CAS:528:DC%2BD3cXisVSgt7g%3D10.1093/oxfordjournals.molbev.a026334
Li, H., Guo, Q., Li, Q. & Yang, L. Long-reads reveal that Rhododendron delavayi plastid genome contains extensive repeat sequences, and recombination exists among plastid genomes of photosynthetic Ericaceae. PeerJ2020 (2020).
MaP-FZhangY-XZengC-XGuoZ-HLiD-ZChloroplast phylogenomic analyses resolve deep-level relationships of an intractable bamboo tribe Arundinarieae (Poaceae)Syst. Biol.20146393395010.1093/sysbio/syu054
RousiAHybridization between Vaccinium uliginosum and cultivated blueberryAnn. Agric. Fenn.196321218
KarppinenKAvetisyanAHykkerudALJaakolaLA dPCR method for quantitative authentication of wild lingonberry (Vaccinium vitis-idaea) versus Cultivated American Cranberry (V. macrocarpon)Foods20221114761:CAS:528:DC%2BB38XhsVyku7vI10.3390/foods11101476
Borowiec, M. L. AMAS: A fast tool for alignment manipulation and computing of summary statistics. PeerJ2016 (2016).
Martínez-AlberolaFBalanced gene losses, duplications and intensive rearrangements led to an unusual regularly sized genome in Arbutus unedo chloroplastsPLoS ONE2013811210.1371/journal.pone.0079685
LeighJWBryantDPOPART: Full-feature software for haplotype network constructionMethods Ecol. Evol.201561110111610.1111/2041-210X.12410
QuinlanARHallIMBEDTools: A flexible suite of utilities for comparing genomic featuresBioinformatics2010268418421:CAS:528:DC%2BC3cXivFGkurc%3D10.1093/bioinformatics/btq033
GreinerSLehwarkPBockROrganellarGenomeDRAW (OGDRAW) version 1.3.1: Expanded toolkit for the graphical visualization of organellar genomesNucleic Acids Res.201947W59W641:CAS:528:DC%2BB3cXktVyis7s%3D10.1093/nar/gkz238
GoldyRGLyrenePMMeiotic abnormalities of Vaccinium ashei × Vaccinium darrowi hybridsCan. J. Genet. Cytol.19842614615110.1139/g84-025
KulkarniKPAdmixture analysis using genotyping-by-sequencing reveals genetic relatedness and parental lineage distribution in highbush blueberry genotypes and cross derivativesInt. J. Mol. Sci.202122116
NishiyamaSGenomic insight into the developmental history of southern highbush blueberry populationsHeredity (Edinb).20211261942051:CAS:528:DC%2BB3cXhslyns7zF10.1038/s41437-020-00362-0
KorenSCanu: Scalable and accurate long-read assembly via adaptive κ-mer weighting and repeat separationGenome Res.2017277227361:CAS:528:DC%2BC2sXhtFyjsrvI10.1101/gr.215087.116
BianYPatterns of simple sequence repeats in cultivated blueberries (Vaccinium section Cyanococcus spp.) and their use in revealing genetic diversity and population structureMol. Breed.2014346756891:CAS:528:DC%2BC2cXhtFCqt7%2FO10.1007/s11032-014-0066-7
SinghBPCpGDB: A comprehensive database of chloroplast genomesBioinformation20201617117510.6026/97320630016171
RicePLongdenLBleasbyAEMBOSS: The European molecular biology open software suiteTrends Genet.2000162762771:CAS:528:DC%2BD3cXjvVygsbs%3D10.1016/S0168-9525(00)02024-2
ParksMCronnRListonAIncreasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomesBMC Biol.2009711710.1186/1741-7007-7-84
DierckxsensNMardulynPSmitsGNOVOPlasty: De novo assembly of organelle genomes from whole genome dataNucleic Acids Res.201745e18
DaniellHGreen giant—A tiny chloroplast genome with mighty power to produce high-value proteins: History and phylogenyPlant Biotechnol. J.2021194304471:CAS:528:DC%2BB3MXns1Oitb0%3D10.1111/pbi.13556
VorsaNJohnson-CicaleseJPolashockJA blueberry by cranberry hybrid derived from a Vaccinium darrowii x (V. macrocarpon x V. oxycoccos) intersectional crossActa Hortic20098101871901:CAS:528:DC%2BD1MXkslWjtbY%3D10.17660/ActaHortic.2009.810.24
SharpeRHHorticultural development of Florida blueberriesProc. Florida State Hortic. Soc.195366188190
BiGMaoYXingQCaoMHomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searchingGenomics201811018221:CAS:528:DC%2BC2sXhtlWgs7jL10.1016/j.ygeno.2017.08.001
LiHDurbinRFast and accurate short read alignment with Burrows-Wheeler transformBioinformatics200925175417601:CAS:528:DC%2BD1MXot1Cjtbo%3D10.1093/bioinformatics/btp324
Chaisson, M. J. & Tesler, G. Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): Application and theory. BMC Bioinform.13, (2012).
KimSCBaekSHLeeJWHyunHJComplete chloroplast genome of Vaccinium oldhamii and phylogenetic analysisMitochondrial DNA Part B Resour.2019490290310.1080/23802359.2019.1579067
MiaoXRChenQXNiuJQGuoYPThe complete chloroplast genome of highbush blueberry (Vaccinium corymbosum)Mitochondrial DNA Part B Resour.20227878810.1080/23802359.2021.2009384
LyrenePMOlmsteadJWThe use of inter-sectional hybrids in blueberry breedingInt. J. Fruit Sci.20121226927510.1080/15538362.2011.619429
DraperATetraploid hybrids from crosses of diploid, tetraploid, and hexaploid Vaccinium speciesActa Hortic.197761333710.17660/ActaHortic.1977.61.3
BeierSThielTMünchTScholzUMascherMMISA-web: A web server for microsatellite predictionBioinformatics201733258325851:CAS:528:DC%2BC1cXitFOntb7L10.1093/bioinformatics/btx198
ColleMHaplotype-phased genome and evolution of phytonutrient pathways of tetraploid blueberryGigascience201981151:CAS:528:DC%2BC1MXhvF2jsbrI10.1093/gigascience/giz012
BrevisPABassilNVBallingtonJRHancockJFImpact of wide hybridization on highbush blueberry breedingJ. Am. Soc. Hortic. Sci.200813342743710.21273/JASHS.133.3.427
LetunicIBorkPInteractive tree of life (iTOL) v5: An online tool for phylogenetic tree display and annotationNucleic Acids Res.202149W293W2961:CAS:528:DC%2BB3MXhvV2isLvM10.1093/nar/gkab301
SharpeRDarrowGBreeding blueberries for the Florida climateProc. Florida State Hortic. Soc.195972215217
de Vries, A. & Ripley, B. D. ggdendro: Create Dendrograms and Tree Diagrams Using ‘ggplot2’. (2022). Available at: https://github.com/andrie/ggdendro.
PowellEAKronKAListonAHawaiian blueberries and their relatives—A phylogenetic analysis of Vaccinium sections Macropelma, Myrtillus, and Hemimyrtillus (Ericaceae)Syst. Bot.200227768779
MonerAMFurtadoAHenryRJTwo divergent chloroplast genome sequence clades captured in the domest
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References_xml – reference: BrevisPABassilNVBallingtonJRHancockJFImpact of wide hybridization on highbush blueberry breedingJ. Am. Soc. Hortic. Sci.200813342743710.21273/JASHS.133.3.427
– reference: Li, H., Guo, Q., Li, Q. & Yang, L. Long-reads reveal that Rhododendron delavayi plastid genome contains extensive repeat sequences, and recombination exists among plastid genomes of photosynthetic Ericaceae. PeerJ2020 (2020).
– reference: R Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. (2021). Available at: https://www.r-project.org/.
– reference: KronKAPhylogenetic classification of Ericaceae: Molecular and morphological evidenceBot. Rev.20026833542310.1663/0006-8101(2002)068[0335:PCOEMA]2.0.CO;2
– reference: JansenRKRuhlmanTABockRKnoopVPlastid genomes of seed plantsGenomics of Chloroplasts and Mitochondria2012Springer10312610.1007/978-94-007-2920-9_5
– reference: SaloHMAuthentication of berries and berry-based food productsCompr. Rev. Food Sci. Food Saf.202120519752251:CAS:528:DC%2BB3MXhslGjur%2FI10.1111/1541-4337.12811
– reference: LyrenePMOlmsteadJWThe use of inter-sectional hybrids in blueberry breedingInt. J. Fruit Sci.20121226927510.1080/15538362.2011.619429
– reference: NCBI Multiple Sequence Alignment Viewer. Available at: https://www.ncbi.nlm.nih.gov/projects/msaviewer/. (Accessed: 21st February 2022)
– reference: AmiryousefiAHyvönenJPoczaiPIRscope: an online program to visualize the junction sites of chloroplast genomesBioinformatics201834303030311:CAS:528:DC%2BC1MXptVGqsLw%3D10.1093/bioinformatics/bty220
– reference: BeierSThielTMünchTScholzUMascherMMISA-web: A web server for microsatellite predictionBioinformatics201733258325851:CAS:528:DC%2BC1cXitFOntb7L10.1093/bioinformatics/btx198
– reference: DanecekPTwelve years of SAMtools and BCFtoolsGigascience202110141:CAS:528:DC%2BB3MXhsVaksLnM10.1093/gigascience/giab008
– reference: ZhengXA high-performance computing toolset for relatedness and principal component analysis of SNP dataBioinformatics201228332633281:CAS:528:DC%2BC38XhvVSmsrbI10.1093/bioinformatics/bts606
– reference: MonerAMFurtadoAHenryRJTwo divergent chloroplast genome sequence clades captured in the domesticated rice gene pool may have significance for rice productionBMC Plant Biol.2020201910.1186/s12870-020-02689-6
– reference: ChenXThe complete chloroplast genome of Vaccinium duclouxii, an endemic species in ChinaMitochondrial DNA Part B Resour.201942215221610.1080/23802359.2019.1624644
– reference: Weakley, A. Flora of the Southern and Mid-Atlantic States May 2015. (2015). Available at: https://ncbg.unc.edu/research/unc-herbarium/floras/. (Accessed: 21st February 2022)
– reference: BallingtonJRThe role of interspecific hybridization in blueberry improvementActa Hortic.2009810496010.17660/ActaHortic.2009.810.2
– reference: LyrenePMValue of various taxa in breeding tetraploid blueberries in FloridaEuphytica199794152210.1023/A:1002903609446
– reference: MiaoXRChenQXNiuJQGuoYPThe complete chloroplast genome of highbush blueberry (Vaccinium corymbosum)Mitochondrial DNA Part B Resour.20227878810.1080/23802359.2021.2009384
– reference: Clement, M., Snell, Q., Walker, P., Posada, D. & Crandall, K. TCS: Estimating gene genealogies. In Proceedings 16th International Parallel and Distributed Processing Symposium 184–190 (2002).
– reference: BallingtonJRCollection, utilization, and preservation of genetic resources in VacciniumHortScience20013621322010.21273/HORTSCI.36.2.213
– reference: DaniellHLinCYuMChangWChloroplast genomes : Diversity, evolution, and applications in genetic engineeringGenome Biol.201610.1186/s13059-016-1004-2
– reference: KorenSCanu: Scalable and accurate long-read assembly via adaptive κ-mer weighting and repeat separationGenome Res.2017277227361:CAS:528:DC%2BC2sXhtFyjsrvI10.1101/gr.215087.116
– reference: MarçaisGMUMmer4: A fast and versatile genome alignment systemPLoS Comput. Biol.20181411410.1371/journal.pcbi.1005944
– reference: BankevichASPAdes: A new genome assembly algorithm and its applications to single-cell sequencingJ. Comput. Biol.20121945547729255411:CAS:528:DC%2BC38XmsFOmt7k%3D10.1089/cmb.2012.0021
– reference: LeighJWBryantDPOPART: Full-feature software for haplotype network constructionMethods Ecol. Evol.201561110111610.1111/2041-210X.12410
– reference: FrazerKAPachterLPoliakovARubinEMDubchakIVISTA: Computational tools for comparative genomicsNucleic Acids Res.20043227327910.1093/nar/gkh458
– reference: HoangDTChernomorOVon HaeselerAMinhBQVinhLSUFBoot2: Improving the ultrafast bootstrap approximationMol. Biol. Evol.2018355185221:CAS:528:DC%2BC1cXitlyjs7rK10.1093/molbev/msx281
– reference: HuntMCirclator: Automated circularization of genome assemblies using long sequencing readsGenome Biol.20151611010.1186/s13059-015-0849-0
– reference: DaniellHGreen giant—A tiny chloroplast genome with mighty power to produce high-value proteins: History and phylogenyPlant Biotechnol. J.2021194304471:CAS:528:DC%2BB3MXns1Oitb0%3D10.1111/pbi.13556
– reference: GoldyRGLyrenePMMeiotic abnormalities of Vaccinium ashei × Vaccinium darrowi hybridsCan. J. Genet. Cytol.19842614615110.1139/g84-025
– reference: RonquistFHuelsenbeckJPMrBayes 3: Bayesian phylogenetic inference under mixed modelsBioinformatics200319157215741:CAS:528:DC%2BD3sXntlKms7k%3D10.1093/bioinformatics/btg180
– reference: HancockJLyrenePFinnCVorsaNLobosGHancockJBlueberries and cranberriesTemperate Fruit Crop Breeding2008Springer10.1007/978-1-4020-6907-9
– reference: BianYPatterns of simple sequence repeats in cultivated blueberries (Vaccinium section Cyanococcus spp.) and their use in revealing genetic diversity and population structureMol. Breed.2014346756891:CAS:528:DC%2BC2cXhtFCqt7%2FO10.1007/s11032-014-0066-7
– reference: LiHDurbinRFast and accurate short read alignment with Burrows-Wheeler transformBioinformatics200925175417601:CAS:528:DC%2BD1MXot1Cjtbo%3D10.1093/bioinformatics/btp324
– reference: JakobssonMSällTLind-HalldénCHalldénCEvolution of chloroplast mononucleotide microsatellites in Arabidopsis thalianaTheor. Appl. Genet.20071142232351:CAS:528:DC%2BD28XhtlWntbrI10.1007/s00122-006-0425-9
– reference: DarrowGDermenHScottDA tetraploid blueberry: From a Cross of Diploid and Hexaploid SpeciesJ. Hered.19494030430610.1093/oxfordjournals.jhered.a105965
– reference: DraperATetraploid hybrids from crosses of diploid, tetraploid, and hexaploid Vaccinium speciesActa Hortic.197761333710.17660/ActaHortic.1977.61.3
– reference: BiGMaoYXingQCaoMHomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searchingGenomics201811018221:CAS:528:DC%2BC2sXhtlWgs7jL10.1016/j.ygeno.2017.08.001
– reference: LarkinMAClustal W and Clustal X version 2.0Bioinformatics200723294729481:CAS:528:DC%2BD2sXhtlaqsL%2FM10.1093/bioinformatics/btm404
– reference: GCpp. Available at: https://github.com/PacificBiosciences/gcpp (Accessed: 21st February 2022)
– reference: KronKAPowellEALuteynJLPhylogenetic relationships within the blueberry tribe (Vaccinieae, Ericaceae) based on sequence data from matK and nuclear ribosomal ITS regions, with comments on the placement of SatyriaAm. J. Bot.2002893273361:CAS:528:DC%2BD3sXisleitA%3D%3D10.3732/ajb.89.2.327
– reference: KulkarniKPAdmixture analysis using genotyping-by-sequencing reveals genetic relatedness and parental lineage distribution in highbush blueberry genotypes and cross derivativesInt. J. Mol. Sci.202122116
– reference: Magdy, M. et al. Pan-plastome approach empowers the assessment of genetic variation in cultivated Capsicum species. Hortic. Res.6, (2019).
– reference: Covarrubias-pazaranBSGFajardoDSteffanSZalapaJDiscriminating power of microsatellites in cranberry organelles for taxonomic studies in Vaccinium and EricaceaeGenet. Resour. Crop Evol.20176445146610.1007/s10722-016-0371-6
– reference: KoboldtDCVarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencingGenome Res.2012225685761:CAS:528:DC%2BC38XjsV2ltr4%3D10.1101/gr.129684.111
– reference: WalkerJFJansenRKZanisMJEmeryNCSources of inversion variation in the small single copy (SSC) region of chloroplast genomesAm. J. Bot.2015102175117521:CAS:528:DC%2BC28XnvFCitbo%3D10.3732/ajb.1500299
– reference: Chaisson, M. J. & Tesler, G. Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): Application and theory. BMC Bioinform.13, (2012).
– reference: de Vries, A. & Ripley, B. D. ggdendro: Create Dendrograms and Tree Diagrams Using ‘ggplot2’. (2022). Available at: https://github.com/andrie/ggdendro.
– reference: RousiAHybridization between Vaccinium uliginosum and cultivated blueberryAnn. Agric. Fenn.196321218
– reference: QuinlanARHallIMBEDTools: A flexible suite of utilities for comparing genomic featuresBioinformatics2010268418421:CAS:528:DC%2BC3cXivFGkurc%3D10.1093/bioinformatics/btq033
– reference: KatohKStandleyDMMAFFT multiple sequence alignment software version 7: Improvements in performance and usabilityMol. Biol. Evol.2013307727801:CAS:528:DC%2BC3sXksFWisLc%3D10.1093/molbev/mst010
– reference: KarppinenKAvetisyanAHykkerudALJaakolaLA dPCR method for quantitative authentication of wild lingonberry (Vaccinium vitis-idaea) versus Cultivated American Cranberry (V. macrocarpon)Foods20221114761:CAS:528:DC%2BB38XhsVyku7vI10.3390/foods11101476
– reference: Vander KloetSPThe genus Vaccinium in North America1988Publication, Agriculture Canada
– reference: PalmerJDComparative organization of chloroplast genomesAnnu. Rev. Genet.1985193253541:CAS:528:DyaL28Xmt12ksg%3D%3D10.1146/annurev.ge.19.120185.001545
– reference: RicePLongdenLBleasbyAEMBOSS: The European molecular biology open software suiteTrends Genet.2000162762771:CAS:528:DC%2BD3cXjvVygsbs%3D10.1016/S0168-9525(00)02024-2
– reference: Borowiec, M. L. AMAS: A fast tool for alignment manipulation and computing of summary statistics. PeerJ2016 (2016).
– reference: GuoWThe complete chloroplast genome of Vaccinium fragile (Vacciniaceae), a shrub endemic to ChinaMitochondrial DNA Part B Resour.201942310231110.1080/23802359.2019.1627948
– reference: SharpeRDarrowGBreeding blueberries for the Florida climateProc. Florida State Hortic. Soc.195972215217
– reference: Liu, C. et al. CpGAVAS, an integrated web server for the annotation, visualization, analysis, and GenBank submission of completely sequenced chloroplast genome sequences. BMC Genomics13 (2012).
– reference: DierckxsensNMardulynPSmitsGNOVOPlasty: De novo assembly of organelle genomes from whole genome dataNucleic Acids Res.201745e18
– reference: CovilleFVHambidgeGImproving the wild blueberryUSDA Yearbook of Agriculture1937U.S. Govt. Printing Office559574
– reference: Vander KloetSPVaccinia gloriosaSmall Fruits Rev.2004322122710.1300/J301v03n03_01
– reference: WalkerBJPilon: An integrated tool for comprehensive microbial variant detection and genome assembly improvementPLoS ONE20149e1129632014PLoSO...9k2963W10.1371/journal.pone.0112963
– reference: The Vaccinium Coordinated Agricultural Project (VacCAP). Available at: https://www.vacciniumcap.org/. (Accessed 21st February 2022)
– reference: SelkoeKAToonenRJMicrosatellites for ecologists: A practical guide to using and evaluating microsatellite markersEcol. Lett.2006961562910.1111/j.1461-0248.2006.00889.x
– reference: GeorgeBBhattBSAwasthiMGeorgeBSinghAKComparative analysis of microsatellites in chloroplast genomes of lower and higher plantsCurr. Genet.2015616656771:CAS:528:DC%2BC2MXovVahsb8%3D10.1007/s00294-015-0495-9
– reference: LetunicIBorkPInteractive tree of life (iTOL) v5: An online tool for phylogenetic tree display and annotationNucleic Acids Res.202149W293W2961:CAS:528:DC%2BB3MXhvV2isLvM10.1093/nar/gkab301
– reference: ColleMHaplotype-phased genome and evolution of phytonutrient pathways of tetraploid blueberryGigascience201981151:CAS:528:DC%2BC1MXhvF2jsbrI10.1093/gigascience/giz012
– reference: WangWAssembly of chloroplast genomes with long- and short-read data: A comparison of approaches using Eucalyptus pauciflora as a test caseBMC Genomics20181911510.1186/s12864-018-5348-8
– reference: LiHThe sequence alignment/map format and SAMtoolsBioinformatics2009252078207910.1093/bioinformatics/btp352
– reference: KoboldtDCVarScan: Variant detection in massively parallel sequencing of individual and pooled samplesBioinformatics200925228322851:CAS:528:DC%2BD1MXhtVeksr7O10.1093/bioinformatics/btp373
– reference: HuangXMadanACAP3: A DNA sequence assembly programGenome Res.199998688771:CAS:528:DyaK1MXmslKgs7Y%3D10.1101/gr.9.9.868
– reference: KimSCBaekSHLeeJWHyunHJComplete chloroplast genome of Vaccinium oldhamii and phylogenetic analysisMitochondrial DNA Part B Resour.2019490290310.1080/23802359.2019.1579067
– reference: Martínez-AlberolaFBalanced gene losses, duplications and intensive rearrangements led to an unusual regularly sized genome in Arbutus unedo chloroplastsPLoS ONE2013811210.1371/journal.pone.0079685
– reference: VorsaNJohnson-CicaleseJPolashockJA blueberry by cranberry hybrid derived from a Vaccinium darrowii x (V. macrocarpon x V. oxycoccos) intersectional crossActa Hortic20098101871901:CAS:528:DC%2BD1MXkslWjtbY%3D10.17660/ActaHortic.2009.810.24
– reference: LarssonAAliView: A fast and lightweight alignment viewer and editor for large datasetsBioinformatics201430327632781:CAS:528:DC%2BC28XhtFOrtb%2FM10.1093/bioinformatics/btu531
– reference: SinghBPCpGDB: A comprehensive database of chloroplast genomesBioinformation20201617117510.6026/97320630016171
– reference: PowellEAKronKAListonAHawaiian blueberries and their relatives—A phylogenetic analysis of Vaccinium sections Macropelma, Myrtillus, and Hemimyrtillus (Ericaceae)Syst. Bot.200227768779
– reference: MinhBQIQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic eraMol. Biol. Evol.202037153015341:CAS:528:DC%2BB3cXis1egsLbL10.1093/molbev/msaa015
– reference: SleumerHVaccinioidee-StudienBot. Jahrbücher194171432433
– reference: KimYShinJOhDRKimAYChoiCComparative analysis of complete chloroplast genome sequences and insertion-deletion (Indel) polymorphisms to distinguish five Vaccinium speciesForests20201111310.3390/f11090927
– reference: MaP-FZhangY-XZengC-XGuoZ-HLiD-ZChloroplast phylogenomic analyses resolve deep-level relationships of an intractable bamboo tribe Arundinarieae (Poaceae)Syst. Biol.20146393395010.1093/sysbio/syu054
– reference: CampWHThe North American blueberries with notes on other groups of VacciniaceaeBrittonia1945520327510.2307/2804880
– reference: TillichMGeSeq—Versatile and accurate annotation of organelle genomesNucleic Acids Res.201745W6W111:CAS:528:DC%2BC1cXhs1amt7w%3D10.1093/nar/gkx391
– reference: LogachevaMDSchelkunovMIShtratnikovaVYMatveevaMVPeninAAComparative analysis of plastid genomes of non-photosynthetic Ericaceae and their photosynthetic relativesSci. Rep.2016611410.1038/srep30042
– reference: ParksMCronnRListonAIncreasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomesBMC Biol.2009711710.1186/1741-7007-7-84
– reference: ChoWBThe complete plastid genome sequence of Vaccinium japonicum (Ericales: Ericaceae), a deciduous broad-leaved shrub endemic to East AsiaMitochondrial DNA Part B Resour.202161926192810.1080/23802359.2021.1935351
– reference: CastresanaJSelection of conserved blocks from multiple alignments for their use in phylogenetic analysisMol. Biol. Evol.2000175405521:CAS:528:DC%2BD3cXisVSgt7g%3D10.1093/oxfordjournals.molbev.a026334
– reference: NishiyamaSGenomic insight into the developmental history of southern highbush blueberry populationsHeredity (Edinb).20211261942051:CAS:528:DC%2BB3cXhslyns7zF10.1038/s41437-020-00362-0
– reference: FajardoDComplete plastid genome sequence of Vaccinium macrocarpon: Structure, gene content, and rearrangements revealed by next generation sequencingTree Genet. Genomes2013948949810.1007/s11295-012-0573-9
– reference: Diaz-GarciaLRodriguez-BonillaLSmithTZalapaJPacbio sequencing reveals identical organelle genomes between American cranberry (Vaccinium macrocarpon ait.) and a wild relativeGenes (Basel).20191011510.3390/genes10040291
– reference: SharpeRHHorticultural development of Florida blueberriesProc. Florida State Hortic. Soc.195366188190
– reference: GreinerSLehwarkPBockROrganellarGenomeDRAW (OGDRAW) version 1.3.1: Expanded toolkit for the graphical visualization of organellar genomesNucleic Acids Res.201947W59W641:CAS:528:DC%2BB3cXktVyis7s%3D10.1093/nar/gkz238
– volume: 810
  start-page: 187
  year: 2009
  ident: 25434_CR14
  publication-title: Acta Hortic
  doi: 10.17660/ActaHortic.2009.810.24
– volume: 6
  start-page: 1110
  year: 2015
  ident: 25434_CR92
  publication-title: Methods Ecol. Evol.
  doi: 10.1111/2041-210X.12410
– ident: 25434_CR3
– volume: 61
  start-page: 33
  year: 1977
  ident: 25434_CR12
  publication-title: Acta Hortic.
  doi: 10.17660/ActaHortic.1977.61.3
– volume: 36
  start-page: 213
  year: 2001
  ident: 25434_CR2
  publication-title: HortScience
  doi: 10.21273/HORTSCI.36.2.213
– ident: 25434_CR93
  doi: 10.1109/IPDPS.2002.1016585
– ident: 25434_CR54
  doi: 10.1038/s41438-019-0191-x
– volume: 10
  start-page: 1
  year: 2019
  ident: 25434_CR23
  publication-title: Genes (Basel).
  doi: 10.3390/genes10040291
– ident: 25434_CR55
  doi: 10.1186/1471-2105-13-238
– volume: 8
  start-page: 1
  year: 2013
  ident: 25434_CR36
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0079685
– volume: 9
  start-page: 868
  year: 1999
  ident: 25434_CR64
  publication-title: Genome Res.
  doi: 10.1101/gr.9.9.868
– volume: 45
  start-page: W6
  year: 2017
  ident: 25434_CR65
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkx391
– volume: 37
  start-page: 1530
  year: 2020
  ident: 25434_CR85
  publication-title: Mol. Biol. Evol.
  doi: 10.1093/molbev/msaa015
– ident: 25434_CR59
– volume: 9
  start-page: e112963
  year: 2014
  ident: 25434_CR60
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0112963
– volume: 9
  start-page: 489
  year: 2013
  ident: 25434_CR22
  publication-title: Tree Genet. Genomes
  doi: 10.1007/s11295-012-0573-9
– volume: 133
  start-page: 427
  year: 2008
  ident: 25434_CR49
  publication-title: J. Am. Soc. Hortic. Sci.
  doi: 10.21273/JASHS.133.3.427
– ident: 25434_CR83
– volume: 19
  start-page: 325
  year: 1985
  ident: 25434_CR39
  publication-title: Annu. Rev. Genet.
  doi: 10.1146/annurev.ge.19.120185.001545
– volume: 6
  start-page: 1926
  year: 2021
  ident: 25434_CR28
  publication-title: Mitochondrial DNA Part B Resour.
  doi: 10.1080/23802359.2021.1935351
– volume: 14
  start-page: 1
  year: 2018
  ident: 25434_CR62
  publication-title: PLoS Comput. Biol.
  doi: 10.1371/journal.pcbi.1005944
– volume: 33
  start-page: 2583
  year: 2017
  ident: 25434_CR74
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btx198
– volume: 6
  start-page: 1
  year: 2016
  ident: 25434_CR37
  publication-title: Sci. Rep.
  doi: 10.1038/srep30042
– volume: 19
  start-page: 430
  year: 2021
  ident: 25434_CR33
  publication-title: Plant Biotechnol. J.
  doi: 10.1111/pbi.13556
– volume: 66
  start-page: 188
  year: 1953
  ident: 25434_CR51
  publication-title: Proc. Florida State Hortic. Soc.
– volume: 20
  start-page: 5197
  year: 2021
  ident: 25434_CR31
  publication-title: Compr. Rev. Food Sci. Food Saf.
  doi: 10.1111/1541-4337.12811
– volume: 19
  start-page: 455
  year: 2012
  ident: 25434_CR63
  publication-title: J. Comput. Biol.
  doi: 10.1089/cmb.2012.0021
– volume: 26
  start-page: 841
  year: 2010
  ident: 25434_CR56
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btq033
– volume: 89
  start-page: 327
  year: 2002
  ident: 25434_CR17
  publication-title: Am. J. Bot.
  doi: 10.3732/ajb.89.2.327
– volume: 12
  start-page: 269
  year: 2012
  ident: 25434_CR44
  publication-title: Int. J. Fruit Sci.
  doi: 10.1080/15538362.2011.619429
– volume: 72
  start-page: 215
  year: 1959
  ident: 25434_CR10
  publication-title: Proc. Florida State Hortic. Soc.
– volume: 7
  start-page: 87
  year: 2022
  ident: 25434_CR29
  publication-title: Mitochondrial DNA Part B Resour.
  doi: 10.1080/23802359.2021.2009384
– volume: 10
  start-page: 1
  year: 2021
  ident: 25434_CR79
  publication-title: Gigascience
  doi: 10.1093/gigascience/giab008
– volume: 8
  start-page: 1
  year: 2019
  ident: 25434_CR34
  publication-title: Gigascience
  doi: 10.1093/gigascience/giz012
– volume: 4
  start-page: 902
  year: 2019
  ident: 25434_CR25
  publication-title: Mitochondrial DNA Part B Resour.
  doi: 10.1080/23802359.2019.1579067
– volume: 61
  start-page: 665
  year: 2015
  ident: 25434_CR42
  publication-title: Curr. Genet.
  doi: 10.1007/s00294-015-0495-9
– volume: 25
  start-page: 1754
  year: 2009
  ident: 25434_CR77
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp324
– volume: 27
  start-page: 768
  year: 2002
  ident: 25434_CR18
  publication-title: Syst. Bot.
– volume: 26
  start-page: 146
  year: 1984
  ident: 25434_CR52
  publication-title: Can. J. Genet. Cytol.
  doi: 10.1139/g84-025
– ident: 25434_CR91
  doi: 10.7287/peerj.preprints.1355v1
– start-page: 559
  volume-title: USDA Yearbook of Agriculture
  year: 1937
  ident: 25434_CR50
– volume: 63
  start-page: 933
  year: 2014
  ident: 25434_CR20
  publication-title: Syst. Biol.
  doi: 10.1093/sysbio/syu054
– volume: 19
  start-page: 1
  year: 2018
  ident: 25434_CR30
  publication-title: BMC Genomics
  doi: 10.1186/s12864-018-5348-8
– volume: 34
  start-page: 3030
  year: 2018
  ident: 25434_CR73
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bty220
– volume: 16
  start-page: 171
  year: 2020
  ident: 25434_CR67
  publication-title: Bioinformation
  doi: 10.6026/97320630016171
– volume: 32
  start-page: 273
  year: 2004
  ident: 25434_CR69
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkh458
– volume: 810
  start-page: 49
  year: 2009
  ident: 25434_CR13
  publication-title: Acta Hortic.
  doi: 10.17660/ActaHortic.2009.810.2
– volume: 102
  start-page: 1751
  year: 2015
  ident: 25434_CR40
  publication-title: Am. J. Bot.
  doi: 10.3732/ajb.1500299
– volume: 22
  start-page: 1
  year: 2021
  ident: 25434_CR47
  publication-title: Int. J. Mol. Sci.
– volume: 16
  start-page: 276
  year: 2000
  ident: 25434_CR70
  publication-title: Trends Genet.
  doi: 10.1016/S0168-9525(00)02024-2
– ident: 25434_CR72
– ident: 25434_CR9
– ident: 25434_CR76
– volume: 11
  start-page: 1476
  year: 2022
  ident: 25434_CR32
  publication-title: Foods
  doi: 10.3390/foods11101476
– volume: 17
  start-page: 540
  year: 2000
  ident: 25434_CR90
  publication-title: Mol. Biol. Evol.
  doi: 10.1093/oxfordjournals.molbev.a026334
– year: 2016
  ident: 25434_CR21
  publication-title: Genome Biol.
  doi: 10.1186/s13059-016-1004-2
– ident: 25434_CR66
  doi: 10.1186/1471-2164-13-715
– volume: 22
  start-page: 568
  year: 2012
  ident: 25434_CR81
  publication-title: Genome Res.
  doi: 10.1101/gr.129684.111
– volume: 11
  start-page: 1
  year: 2020
  ident: 25434_CR24
  publication-title: Forests
  doi: 10.3390/f11090927
– volume: 35
  start-page: 518
  year: 2018
  ident: 25434_CR86
  publication-title: Mol. Biol. Evol.
  doi: 10.1093/molbev/msx281
– volume: 64
  start-page: 451
  year: 2017
  ident: 25434_CR16
  publication-title: Genet. Resour. Crop Evol.
  doi: 10.1007/s10722-016-0371-6
– volume: 2
  start-page: 12
  year: 1963
  ident: 25434_CR45
  publication-title: Ann. Agric. Fenn.
– volume: 20
  start-page: 1
  year: 2020
  ident: 25434_CR53
  publication-title: BMC Plant Biol.
  doi: 10.1186/s12870-020-02689-6
– volume: 71
  start-page: 432
  year: 1941
  ident: 25434_CR4
  publication-title: Bot. Jahrbücher
– volume: 49
  start-page: W293
  year: 2021
  ident: 25434_CR87
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkab301
– volume: 126
  start-page: 194
  year: 2021
  ident: 25434_CR46
  publication-title: Heredity (Edinb).
  doi: 10.1038/s41437-020-00362-0
– volume: 16
  start-page: 1
  year: 2015
  ident: 25434_CR58
  publication-title: Genome Biol.
  doi: 10.1186/s13059-015-0849-0
– volume: 3
  start-page: 221
  year: 2004
  ident: 25434_CR7
  publication-title: Small Fruits Rev.
  doi: 10.1300/J301v03n03_01
– volume: 5
  start-page: 203
  year: 1945
  ident: 25434_CR8
  publication-title: Brittonia
  doi: 10.2307/2804880
– volume: 9
  start-page: 615
  year: 2006
  ident: 25434_CR43
  publication-title: Ecol. Lett.
  doi: 10.1111/j.1461-0248.2006.00889.x
– volume: 25
  start-page: 2078
  year: 2009
  ident: 25434_CR78
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp352
– ident: 25434_CR38
  doi: 10.7717/peerj.9048
– volume: 68
  start-page: 335
  year: 2002
  ident: 25434_CR6
  publication-title: Bot. Rev.
  doi: 10.1663/0006-8101(2002)068[0335:PCOEMA]2.0.CO;2
– volume: 27
  start-page: 722
  year: 2017
  ident: 25434_CR57
  publication-title: Genome Res.
  doi: 10.1101/gr.215087.116
– volume: 94
  start-page: 15
  year: 1997
  ident: 25434_CR15
  publication-title: Euphytica
  doi: 10.1023/A:1002903609446
– volume: 4
  start-page: 2310
  year: 2019
  ident: 25434_CR27
  publication-title: Mitochondrial DNA Part B Resour.
  doi: 10.1080/23802359.2019.1627948
– volume: 4
  start-page: 2215
  year: 2019
  ident: 25434_CR26
  publication-title: Mitochondrial DNA Part B Resour.
  doi: 10.1080/23802359.2019.1624644
– volume: 19
  start-page: 1572
  year: 2003
  ident: 25434_CR88
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btg180
– volume: 114
  start-page: 223
  year: 2007
  ident: 25434_CR41
  publication-title: Theor. Appl. Genet.
  doi: 10.1007/s00122-006-0425-9
– volume: 30
  start-page: 3276
  year: 2014
  ident: 25434_CR75
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btu531
– volume: 7
  start-page: 1
  year: 2009
  ident: 25434_CR19
  publication-title: BMC Biol.
  doi: 10.1186/1741-7007-7-84
– volume: 23
  start-page: 2947
  year: 2007
  ident: 25434_CR71
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btm404
– volume: 25
  start-page: 2283
  year: 2009
  ident: 25434_CR80
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp373
– volume: 30
  start-page: 772
  year: 2013
  ident: 25434_CR89
  publication-title: Mol. Biol. Evol.
  doi: 10.1093/molbev/mst010
– volume: 47
  start-page: W59
  year: 2019
  ident: 25434_CR68
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkz238
– volume-title: Temperate Fruit Crop Breeding
  year: 2008
  ident: 25434_CR5
  doi: 10.1007/978-1-4020-6907-9
– volume: 110
  start-page: 18
  year: 2018
  ident: 25434_CR84
  publication-title: Genomics
  doi: 10.1016/j.ygeno.2017.08.001
– start-page: 103
  volume-title: Genomics of Chloroplasts and Mitochondria
  year: 2012
  ident: 25434_CR35
  doi: 10.1007/978-94-007-2920-9_5
– volume: 40
  start-page: 304
  year: 1949
  ident: 25434_CR11
  publication-title: J. Hered.
  doi: 10.1093/oxfordjournals.jhered.a105965
– volume: 28
  start-page: 3326
  year: 2012
  ident: 25434_CR82
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bts606
– volume: 45
  start-page: e18
  year: 2017
  ident: 25434_CR61
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkw1060
– volume: 34
  start-page: 675
  year: 2014
  ident: 25434_CR48
  publication-title: Mol. Breed.
  doi: 10.1007/s11032-014-0066-7
– volume-title: The genus Vaccinium in North America
  year: 1988
  ident: 25434_CR1
SSID ssj0000529419
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Snippet Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization...
Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and polyploidization...
Abstract Vaccinium is a large genus of shrubs that includes a handful of economically important berry crops. Given the numerous hybridizations and...
SourceID doaj
pubmedcentral
proquest
pubmed
crossref
springer
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Open Access Repository
Aggregation Database
Index Database
Enrichment Source
Publisher
StartPage 21600
SubjectTerms 631/181/757
631/208/212/748
631/208/514/1948
631/208/711
631/208/721
631/449/2492
Blueberry Plants - genetics
Chloroplasts
Chloroplasts - genetics
Comparative analysis
Conserved sequence
Copy number
Crops
Crops, Agricultural - genetics
DNA Copy Number Variations
Domestication
Economic importance
Evolutionary conservation
Fruit
Fruits
Genetic engineering
Genetically altered foods
Genome, Chloroplast
Humanities and Social Sciences
Hybridization
Hybrids
multidisciplinary
Phylogenetics
Phylogeny
Plastomes
Polyploidy
Science
Science (multidisciplinary)
Shrubs
Simple sequence repeats
Single-nucleotide polymorphism
Synteny
Vaccinium
Vaccinium angustifolium
Vaccinium corymbosum
Vaccinium myrtillus
Vaccinium virgatum
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Title Chloroplast genome assemblies and comparative analyses of commercially important Vaccinium berry crops
URI https://link.springer.com/article/10.1038/s41598-022-25434-5
https://www.ncbi.nlm.nih.gov/pubmed/36517490
https://www.proquest.com/docview/2754337474
https://www.proquest.com/docview/2754858602
https://pubmed.ncbi.nlm.nih.gov/PMC9751094
https://doaj.org/article/97252451fcbf412a8e0b49f4aebbf3fd
Volume 12
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