Inheritance of Solanum chloroplast genomic DNA in interspecific hybrids

References

• Afful NT, Nyadanu D, Akromah R, Amoatey HM, Annor C, Diawouh RG. 2018. Evaluation of crossability studies between selected eggplant accessions with wild relatives S. torvum, S. anguivi and S. aethopicum (Shum group). J Plant Breed Crop Sci. 10(1):1–12.
   Google Scholar
• Alice B. 2011. Expression of plastid genes: organelle-specific elaborations on a prokaryotic scaffold. Plant Physiol. 155(4):1520–1532.
   PubMed Web of Science ®Google Scholar
• Antipov D, Korobeynikov A, McLean JS, Pevzner PA. 2016. hybridSPAdes: an algorithm for hybrid assembly of short and long reads. Bioinformatics. 32(7):1009–1015.
   PubMed Web of Science ®Google Scholar
• Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, et al. 2000. Gene ontology: tool for the unification of biology. Nat Genet. 25(1):25–29.
   PubMed Web of Science ®Google Scholar
• Augustinos AA, Petropoulos C, Karasoulou V, Bletsos F, Papasotiropoulos V. 2016. Assessing diversity among traditional Greek and foreign eggplant cultivars using molecular markers and morphometrical descriptors. Span J Agric Res. 14(4):e0710.
   Web of Science ®Google Scholar
• Bentolila S, Stefanov S. 2012. A reevaluation of rice mitochondrial evolution based on the complete sequence of male-fertile and male-sterile mitochondrial genomes. Plant Physiol. 158(2):996–1017.
   PubMed Web of Science ®Google Scholar
• Birchler JA, Johnson AF, Veitia RA. 2016. Kinetics genetics: incorporating the concept of genomic balance into an understanding of quantitative traits. Plant Sci. 245:128–134.
   PubMed Web of Science ®Google Scholar
• Birchler JA, Yao H, Chudalayandi S, Vaiman D, Veitia RA. 2010. Heterosis. Plant Cell. 22(7):2105–2112.
   PubMed Web of Science ®Google Scholar
• Bock R. 2007. Structure, function, and inheritance of plastid genomes. In: Bock R. (eds) Cell and Molecular Biology of Plastids. Topics in Current Genetics, vol 19. Springer, Berlin, Heidelberg
   Google Scholar
• Borgström E, Lundin S, Lundeberg J. 2011. Large scale library generation for high throughput sequencing. PLoS One. 6(4):e19119.
   PubMed Web of Science ®Google Scholar
• Christodoulakis NS, Lampri PN, Fasseas C. 2009. Structural and cytochemical investigation of the leaf of silverleaf nightshade (Solanum elaeagnifolium), a drought-resistant alien weed of the Greek flora. Aust J Bot. 57(5):432–438.
   Web of Science ®Google Scholar
• Collonnier C, Fock I, Daunay M-C, Servaes A, Vedel F, Siljak-Yakovlev S, Souvannavong V, Sihachakr D. 2003. Somatic hybrids between Solanum melongena and S. sisymbrifolium, as a useful source of resistance against bacterial and fungal wilts. Plant Sci. 164(5):849–861.
   Web of Science ®Google Scholar
• Corriveau JL, Coleman AW. 1988. Rapid screening method to detect potential biparental inheritance of plastid DNA and results for over 200 angiosperm species. Am J Bot. 75(10):1443–1458.
   Web of Science ®Google Scholar
• Darriba D, Taboada GL, Doallo R, Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 9(8):772.
   PubMed Web of Science ®Google Scholar
• Diatchenko L, Lau YF, Campbell AP, Chenchik A, Moqadam F, Huang B, Lukyanov S, Lukyanov K, Gurskaya N, Sverdlov ED, et al. 1996. Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc Natl Acad Sci USA. 93(12):6025–6030.
   PubMed Web of Science ®Google Scholar
• Ding QX, Liu J, Gao LZ. 2016. The complete chloroplast genome of eggplant (Solanum melongena L). Mitochondrial DNA Part B-Res. 1(1):843–844.
   Web of Science ®Google Scholar
• Frary A, Tümbilen Y, Doganlar S, Daunay M-C. 2011. Application of EST-SSRs to examine genetic diversity in eggplant and its close relatives. Turk J Biol. 35(2):125–136.
   Web of Science ®Google Scholar
• Giacomin LL, Bohs L, Stehmann JR. 2013. Two new species from the Brevantherum clade of Solanum (solanaceae) from Eastern Brazil. J Bot Res Inst Texas. 7(1)
   Google Scholar
• Guindon S, Dufayard J-F, Lefort V, Anisimova M, Hordijk W, Gascuel O. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol. 59(3):307–321.
   PubMed Web of Science ®Google Scholar
• Hagemann R, Schröder M-B. 1989. The cytological basis of the plastid inheritance in angiosperms. Protoplasma. 152(2–3):57–64.
   Web of Science ®Google Scholar
• Hansen AK, Escobar LK, Gilbert LE, Jansen RK. 2007. Paternal, maternal, and biparental inheritance of the chloroplast genome in Passiflora (Passifloraceae): implications for phylogenetic studies. Am J Bot. 94(1):42–46.
   PubMed Web of Science ®Google Scholar
• Hayashi H, Huang P, Takada S, Obinata M, Inoue K, Shibuya M, Ebizuka Y. 2004. Differential expression of three oxidosqualene cyclase mRNAs in Glycyrrhiza glabra. Biol Pharm Bull. 27(7):1086–1092.
   PubMed Web of Science ®Google Scholar
• He G. 2003. A common sequence difference between cytoplasmic male sterile lines and their maintainer lines existing in rice (Oryza sativa L.) chloroplast tRNA-Leu gene region. Euphytica. 131(3):269–274.
   Web of Science ®Google Scholar
• Hu YC, Zhang Q, Rao GY, Sodmergen. 2008. Occurrence of plastids in the sperm cells of Caprifoliaceae: biparental plastid inheritance in angiosperms is unilaterally derived from maternal inheritance. Plant Cell Physiol 49:958–968.
   Google Scholar
• Iturbe-Ormaetxe I, Haralampidis K, Papadopoulou K, Osbourn AE. 2003. Molecular cloning and characterization of triterpene synthases from Medicago truncatula and Lotus japonicus. Plant Mol Biol. 51(5):731–743.
   PubMed Web of Science ®Google Scholar
• Iwamoto Y, Hirai M, Ohmido N, Fukui K, Ezura H. 2007. Fertile somatic hybrids between Solanum integrifolium and S. sanitwongsei (syn. S. kurzii) as candidates for bacterial wilt-resistant rootstock of eggplant. Plant Biotechnol. 24(2):179–184.
   Web of Science ®Google Scholar
• Jansen RK, Ruhlman TA. 2012. Plastid genomes of seed plants. In: Bock R, Knoop V, editors. Genomics of chloroplasts and mitochondria. Advances in photosynthesis and respiration (including bioenergy and related processes), Vol. 35, pp. 103-126. Dordrecht (The Netherlands): Springer.
   Google Scholar
• Jensen C, Ørsted M, Kristensen TN. 2018. Effects of genetic distance on heterosis in a Drosophila melanogaster model system. Genetica. 146(4–5):345–359.
   PubMed Web of Science ®Google Scholar
• Kaneisha M, Goto S, Hattori M, Aoki-Kinoshita KF, Itoh M, Kawashima S, Katayama T, Araki M, Hirakawa M, et al. 2006. From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 34:D354–D357.
   PubMed Web of Science ®Google Scholar
• Kaneisha M, Goto S, Kawashima S, Okuna Y, Hattori M. 2004. The KEGG resource for deciphering the genome. Nucleic Acids Res. 32:D277–D280.
   PubMed Web of Science ®Google Scholar
• Kaushik P, Prohens J, Vilanova S, Gramazio P, Plazas M. 2016. Phenotyping of eggplant wild relatives and interspecific hybrids with conventional and phenomics descriptors provides insight for their potential utilization in breeding. Front Plant Sci. 7:677.
   PubMed Web of Science ®Google Scholar
• Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, et al. 2007. Clustal W and clustal X version 2.0. Bioinformatics. 23(21):2947–2948.
   PubMed Web of Science ®Google Scholar
• Letunic I, Bork P. 2016. Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees. Nucleic Acids Res. 44(W1):W242–W245.
   PubMed Web of Science ®Google Scholar
• Li D, Qi X, Li X, Li L, Zhong C, Huang H. 2013. Maternal inheritance of mitochondrial genomes and complex inheritance of chloroplast genomes in Actinidia Lind.: evidences from interspecific crosses. Mol Genet Genomics. 288(3–4):101–110.
   PubMed Web of Science ®Google Scholar
• Lim TK. 2013. Solanum sessiliflorum.
   Google Scholar
• Liu C, Ma N, Wang P-Y, Fu N, Shen H-L. 2013. Transcriptome sequencing and de novo analysis of a cytoplasmic male sterile line and its near-isogenic restorer line in chili pepper (Capsicum annuum L.). PLoS One. 8(6):e65209.
   PubMed Web of Science ®Google Scholar
• Liu Y. 1983. Chloroplast DNA and cytoplasmic male sterility. Theor Appl Genet. 10(2):114–122.
   Google Scholar
• Lobo I. 2012. Basic Local Alignment Search Tool (BLAST). J Mol Biol. 215(3):403–410.
   Google Scholar
• Lohse M, Drechsel O, Bock R. 2007. OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes. Curr Genet. 52(5–6):267–274.
   PubMed Web of Science ®Google Scholar
• Magrane M. 2011. UniProt Knowledgebase: a hub of integrated protein data. Database. 2011:bar009.
   PubMedGoogle Scholar
• McPherson H, van der Merwe M, Delaney SK, Edwards MA, Henry RJ, McIntosh E, Rymer PD, Milner ML, Siow J, Rossetto M. 2013. Capturing chloroplast variation for molecular ecology studies: a simple next generation sequencing approach applied to a rainforest tree. BMC Ecol. 13(1):8.
   PubMed Web of Science ®Google Scholar
• Meyer RC, Kusterer B, Lisec J, Steinfath M, Becher M, Scharr H, Melchinger AE, Selbig J, Schurr U, Willmitzer L, et al. 2010. QTL analysis of early stage heterosis for biomass in Arabidopsis. Theor Appl Genet. 120(2):227–237.
   PubMed Web of Science ®Google Scholar
• Meyer RS, Karol KG, Little DP, Nee MH, Litt A. 2012. Phylogeographic relationships among Asian eggplants and new perspectives on eggplant domestication. Mol Phylogenet Evol. 63(3):685–701.
   PubMed Web of Science ®Google Scholar
• Nagata N. 2010. Mechanisms for independent cytoplasmic inheritance of mitochondria and plastids in angiosperms. J Plant Res. 123(2):193–199.
   PubMed Web of Science ®Google Scholar
• Pellet DM, Papernik LA, Kochian LV. 1996. Multiple aluminum-resistance mechanisms in wheat (roles of root apical phosphate and malate exudation). Plant Physiol. 112(2):591–597.
   PubMed Web of Science ®Google Scholar
• Plazas M, Vilanova S, Gramazio P, Rodríguez-Burruezo A, Fita A, Herraiz FJ, Ranil R, Fonseka R, Niran L, Fonseka H, et al. 2016. Interspecific hybridization between eggplant and wild relatives from different genepools. J Amer Soc Hort Sci. 141(1):34–44.
   Web of Science ®Google Scholar
• Poczai P, Taller J, Szabo I. 2008. Analysis of phylogenetic relationships in the genus Solanum (Solanaceae) as revealed by RAPD markers. Plant Syst Evol. 275(1–2):59–67.
   Web of Science ®Google Scholar
• Quan Z, Yang L. 2003. Examination of the cytoplasmic DNA in male reproductive cells to determine the potential for cytoplasmic inheritance in 295 angiosperm species. Plant Cell Physiol. 44(9):941–951.
   PubMed Web of Science ®Google Scholar
• Richard C. 2008. Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology. Nucleic Acids Res. 36(19):e122.
   PubMed Web of Science ®Google Scholar
• Rotino GL, Sala T, Toppino L. 2014. Eggplant. Alien Gene Transfer in Crop Plants. 2(7):381–409.
   Google Scholar
• Shiyi h. 1997. Cytological study of plastid inheritance in angiosperms. Acta Botanica Sinica. (4):363–371.
   Google Scholar
• Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, et al. 2003. The COG database: an updated version includes eukaryotes. BMC Bioinformatics. 4(1):41.
   PubMedGoogle Scholar
• Tatusov RL, Koonin EV, Lipman DJ. 1997. A genomic perspective on protein families. Science. 278(5338):631–637.
   PubMed Web of Science ®Google Scholar
• Testolin R, Cipriani G. 1997. Paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in the genus Actinidia. Theor Appl Genet. 94(6–7):897–903.
   Web of Science ®Google Scholar
• Wang Y, Zhang K, Sun L, Han X, Fan S, Li X, Qu Y, Yao D, Wang P, Zhang J, et al. 2018. Study on the relationship between genetic variation of DNA methylation and heterosis in soybean leaves. Euphytica. 214(5):85.
   Web of Science ®Google Scholar
• Wyman SK, Jansen RK, Boore JL. 2004. Automatic annotation of organellar genomes with DOGMA. Bioinformatics. 20(17):3252–3255.
   PubMed Web of Science ®Google Scholar
• Xiaohua F, Fang Z, Naihu W, Shiyi H. 2003. Plastid inheritance in sweet potato as revealed by DNA restriction fingerprinting. J Plant. 45(1):73–75.
   Google Scholar
• Zhou X, Bao S, Liu J, Yang Y, Zhuang Y. 2018. Production and characterization of an amphidiploid derived from interspecific hybridization between Solanum melongena L. and Solanum aculeatissimum Jacq. Sci Hortic. 230:102–106.
   Web of Science ®Google Scholar
• Zora S, Pal M. 2007. Exceptional transmission of plastids and mitochondria from the transplastomic pollen parent and its impact on transgene containment. PNAS. 104(17):7003.
   PubMed Web of Science ®Google Scholar