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Systems Biology of Marine Ecosystems pp 119–132Cite as

Abiotic Stress of Seagrasses: Recent Advances in Transcriptomics, Genomics, and Systems Biology

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Abstract

Seagrasses are a unique taxonomic rank of Plantae, totally submerged to marine environment. They evolved from terrestrial plants so this progression provoked alterations in genome, providing adaptation abilities to aquatic environment. The development of high-throughput technologies, such as omics, bridges the gap between genome and phenotype, shedding some light on molecular mechanisms that regulate seagrass tolerance to abiotic stress.

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References

  • Aquino RS, Landeira-Fernandez AM, Valente AP, Andrade LR, Mourao PAS (2005) Occurrence of sulfated galactans in marine angiosperms: evolutionary implications. Glycobiology 15:11–20

    Article  CAS  PubMed  Google Scholar 

  • Arabidopsis Genome I (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796–815

    Article  Google Scholar 

  • Arnold T, Mealey C, Leahey H, Miller AW, Hall-Spencer JM, Milazzo M, Maers K (2012) Ocean acidification and the loss of phenolic substances in marine plants. PLoS One 7:e35107

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Bortesi L, Fischer R (2015) The CRISPR/Cas9 system for plant genome editing and beyond. Biotechnol Adv 33:41–52

    Article  CAS  PubMed  Google Scholar 

  • Boyd PW (2011) Beyond ocean acidification. Nat Geosci 4:273–274

    Article  CAS  Google Scholar 

  • Campbell SJ, Mckenzie LJ, Kerville SP (2006) Photosynthetic responses of seven tropical seagrasses to elevated seawater temperature. J Exp Mar Biol Ecol 330:455–468

    Article  CAS  Google Scholar 

  • Costanza R, D’Arge R, De Groot R, Farber S, Grasso M, Hannon B, Limburg K, Naeem S, O’Neill RV, Paruelo J, Raskin RG, Sutton P, Van den Belt M (1998) The value of the world’s ecosystem services and natural capital (Reprinted from Nature, vol 387, pg 253, 1997). Ecol Econ 25:3–15

    Article  Google Scholar 

  • Cramer G, Urano K, Delrot S, Pezzotti M, Shinozaki K (2011) Effects of abiotic stress on plants: a systems biology perspective. BMC Plant Biol 11:163

    Article  PubMed  PubMed Central  Google Scholar 

  • Dalla Via J, Sturmbauer C, Schonweger G, Sotz E, Mathekowitsch S, Stifter M, Reinhard R (1998) Light gradients and meadow structure in Posidonia oceanica: ecomorphological and functional correlates. Mar Ecol Prog Ser 163:267–278

    Article  Google Scholar 

  • Dattolo E, Gu J, Bayer PE, Mazzuca S, Scrra IA, Spadafora A, Bernado L, Natali L, Cavallini A, Procaccini G (2013) Acclimation to different depths by the marine angiosperm Posidonia oceanica: transcriptomic and proteomic profiles. Front Plant Sci 195:1–15

    Google Scholar 

  • Dattolo E, Ruocco M, Brunet C, Lorenti M, Lauritano C, D’Esposito D, De Luca P, Sanges R, Mazzuca S, Procaccini G (2014) Response of the seagrass Posidonia oceanica to different light environments: insights from a combined molecular and photo-physiological study. Mar Environ Res 101:225–236

    Article  CAS  PubMed  Google Scholar 

  • Dennison WC, Alberte RS (1986) Photoadaptation and growth of Zostera marina L. (eelgrass) transplants along a depth gradient. J Exp Mar Biol Ecol 98:265–282

    Article  Google Scholar 

  • D’Esposito D, Orru L, Dattolo E, Bernardo L, Lamontara A, Orsini L, Serra IA, Mazzuca S, Procaccini G (2016) Annotation of “de novo” transcriptome in the seagrass Posidonia oceanica and SSR markers development. Sci Data Nat 3:160115

    Article  Google Scholar 

  • Kuo J, Den Hartog C (2007) Seagrasses morphology, anatomy, and ultrastructure. In: AWD L et al (eds) Seagrasses: biology, ecology and conservation. Springer, Dordrecht

    Google Scholar 

  • Delker C, Stenzel I, Hause B, Miersch O, Freussner I, Wasternack C (2006) Jasmonate biosynthesis in Arabidopsis thaliana—enzymes, products, regulation. Plant Biol 8:297–306

    Article  CAS  PubMed  Google Scholar 

  • Dillies MA, Rau A, Aubert J, Hennequet-Antier C, Jeanmougin M, Servant N, Keime C, Marot G, Castel D, Estelle J, Guernec G, Jagla B, Jouneau L, Laloe D, Le Gall C, Schaeffer B, Le Crom S, Guedj M, Jaffrezic F, French Statomique C (2013) A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis. Brief Bioinform 14:671–683

    Article  CAS  PubMed  Google Scholar 

  • Exadactylos A (2015) Molecular approach of seagrasses response related to tolerance acquisition to abiotic stress. In: Çalişkan M, Oz GC, Kavakli IH, Ozcan B (eds) Molecular approaches to genetic diversity. InTech-Open Access, Rijeka, pp 75–91

    Google Scholar 

  • Fourqurean JW, Duarte CM, Kennedy H, Marba N, Holmer M, Mateo MA, Apostolaki ET, Kendrick GA, Krause-Jensen D, Mcglathery KJ, Serrano O (2012) Seagrass ecosystems as a globally significant carbon stock. Nat Geosci 5:505–509

    Article  CAS  Google Scholar 

  • Franssen SU, Gu J, Bergmann N, Winters G, Klostermeier UC, Rosenstiel P, Bornberg-Bauer E, Reusch TBH (2011) Transcriptomic resilience to global warming in the seagrass Zostera marina, a marine foundation species. Proc Natl Acad Sci U S A 108:19276–19281

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Franklin L, Osmond CB, Larkum AD (2003) Photoinhibition, UV-B and algal photosynthesis. In: Larkum AD, Douglas S, Raven J (eds) Photosynthesis in algae, vol 14. Springer, Dordrecht, pp 351–384

    Google Scholar 

  • Garrard SL, Gambi MC, Scipione MB, Patti FP, Lorenti M, Zupo V, Paterson DM, Buia MC (2014) Indirect effects may buffer negative responses of seagrass invertebrate communities to ocean acidification. J Exp Mar Biol Ecol 461:31–38

    Article  Google Scholar 

  • Golicz AA, Schliep M, Lee HT, Larkum AW, Dolferus R, Batley J, Chan CK, Sablok G, Ralph PJ, Edwards D (2015) Genome-wide survey of the seagrass Zostera muelleri suggests modification of the ethylene signalling network. J Exp Bot 66:1489–1498

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Greco M, Chiappetta A, Bruno L, Bitonti MB (2013) Effects of light deficiency on genome methylation in Posidonia oceanica. Mar Ecol Prog Ser 473:103–114

    Google Scholar 

  • Green S (2017) Philosophy of systems biology. Perspectives from scientists and philosophers. Springer, Cham. doi:10.1007/978-3-319-47000-9

  • Haas BJ, Papanicolaou A, Yassour M, Grabherr M, Blood PD, Bowden J, Couger MB, Eccles D, Li B, Lieber M, Macmanes MD, Ott M, Orvis J, Pochet N, Strozzi F, Weeks N, Westerman R, William T, Dewey CN, Henschel R, Leduc RD, Friedman N, Regev A (2013) De novo transcript sequence reconstruction from RNA-seq using the trinity platform for reference generation and analysis. Nat Protoc 8:1494–1512

    Article  CAS  PubMed  Google Scholar 

  • Hasler-Sheetal H, Fragner L, Holmer M, Weckwerth W (2015) Diurnal effects of anoxia on the metabolome of the seagrass Zostera marina. Metabolomics 11:1208–1218

    Article  CAS  Google Scholar 

  • Hemminga MA, Duarte CM (2000) Ecology. Cambridge University Press, Cambridge

    Google Scholar 

  • Hiroaki K (2002) Computational systems biology. Nature 450:206–210

    Google Scholar 

  • Hunt L, Gray JE (2009) The signaling peptide EPF2 controls asymmetric cell divisions during stomatal development. Curr Biol 19:864–869

    Article  CAS  PubMed  Google Scholar 

  • Hsu P, Lander E, Zhang F (2014) Development and applications of CRISPR-Cas9 for genome engineering. Cell 157:1262–1278

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Iyapparaj P, Revathi P, Ramasubburayan R, Prakash S, Palavesam A, Immanuel G, Anantharaman P, Sautreau A, Hellio C (2014) Antifouling and toxic properties of the bioactive metabolites from the seagrasses Syringodium isoetifolium and Cymodocea serrulata. Ecotoxicol Environ Saf 103:54–60

    Article  CAS  PubMed  Google Scholar 

  • Jain M (2015) Function genomics of abiotic stress tolerance in plants: a CRISPR approach. Front Plant Sci 6:375

    Article  PubMed  PubMed Central  Google Scholar 

  • Jiang ZJ, Huang XP, Zhang JP (2010) Effects of CO2 enrichment on photosynthesis, growth, and biochemical composition of seagrass Thalassia hemprichii (Ehrenb.) Aschers. PubMed 10:904–913

    Google Scholar 

  • Khalafallah AA, Geneid YA, Shaetaey SA, Shaaban B (2013) Responses of the seagrass Halodule uninervis (Forssk.) Aschers. to hypersaline conditions. Egypt J Aquat Res 39:167–176

    Article  Google Scholar 

  • Koce JD, Vilhar B, Bohanec B, Dermastia M (2003) Genome size of Adriatic seagrasses. Aquat Bot 77:17–25

    Article  CAS  Google Scholar 

  • Koch MS, Schopmeyer SA, Kyhn-Hansen C, Madden CJ, Peters JS (2007) Tropical seagrass species tolerance to hypersalinity stress. Aquat Bot 86:14–24

    Article  CAS  Google Scholar 

  • Kong FN, Li H, Sun PP, Zhou Y, Mao YX (2014) De novo assembly and characterization of the transcriptome of seagrass Zostera marina using Illumina paired-end sequencing. PLoS One 9:e112245

    Article  PubMed  PubMed Central  Google Scholar 

  • Kumar V, Jain M (2015) The CRISPR-Cas system for plant genome editing: advances and opportunities. J Exp Bot 66:47–57

    Article  CAS  PubMed  Google Scholar 

  • Lauritano C, Ruocco M, Dattolo E, Buia MC, Silva J, Santos R, Olive I, Costa MM, Procaccini G (2015) Response of key stress-related genes of the seagrass Posidonia oceanica in the vicinity of submarine volcanic vents. Biogeosciences 12:4185–4194

    Article  Google Scholar 

  • Mcmahon K, Collier C, Lavery PS (2013) Identifying robust bioindicators of light stress in seagrasses: a meta-analysis. Ecol Indic 30:7–15

    Article  Google Scholar 

  • Murphy LR, Kinsey ST, Durako MJ (2003) Physiological effects of short-term salinity changes on Ruppia maritima. Aquat Bot 75:293–309

    Article  Google Scholar 

  • Muramatsu Y, Harada A, Ohwaki Y, Kasahara Y, Takagi S, Fukuhara T (2002) Salt-tolerant ATPase activity in the plasma membrane of the marine angiosperm Zostera marina L. Plant Cell Physiol 43(10):1137–1145

    Google Scholar 

  • Nadeau JA, Sack FD (2002) Control of stomatal distribution on the Arabidopsis leaf surface. Science 296:1697–1700

    Article  CAS  PubMed  Google Scholar 

  • Nicholson JK, Wilson ID (2003) Understanding ‘global’ systems biology: metabolomics and the continuum of metabolism. Nat Rev 2:668–676

    CAS  Google Scholar 

  • Olsen JL, Rouze P, Verhelst B, Lin YC, Bayer T, Collen J, Dattolo E, De Paoli E, Dittami S, Maumus F, Michel G, Kersting A, Lauritano C, Lohaus R, Topel M, Tonon T, Vanneste K, Amirebrahimi M, Brakel J, Bostrom C, Chovatia M, Grimwood J, Jenkins JW, Jueterbock A, Mraz A, Stam WT, Tice H, Bornberg-Bauer E, Green PJ, Pearson GA, Procaccini G, Duarte CM, Schmutz J, Reusch TB, Van de Peer Y (2016) The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea. Nature 530:331–335

    Article  CAS  PubMed  Google Scholar 

  • Ortega-Martinez O, Pernas M, Carol RJ, Dolan L (2007) Ethylene modulates stem cell division in the Arabidopsis thaliana root. Science 317:507–510

    Article  CAS  PubMed  Google Scholar 

  • Ow YX, Vogel N, Holtum JAM, Flores F, Uthicke S (2016) Nitrate fertilization does not enhance CO2 responses in two tropical seagrasses species. PMC 6:23093

    CAS  Google Scholar 

  • Papenbrock J (2012) Highlights in seagrasses’ phylogeny, physiology, and metabolism: what makes them special? ISRN Bot:1–15

    Google Scholar 

  • Palacios SL, Zimmerman RC (2007) Response of eelgrass Zostera marina to CO2 enrichment: possible impacts of climate change and potential for remediation of coastal habitats. Mar Ecol Prog Ser 344:1–13

    Google Scholar 

  • Piro A, Marin-Guirao L, Serra IA, Spadafora A, Sandoval-Gip JM, Bernardeau-Esteller J, Fernandez JM, Mazzuca S (2015) The modulation of leaf metabolism plays a role in salt tolerance of Cymodocea nodosa exposed to hypersaline stress in mesocosms. Front Plant Sci 6:464

    Article  PubMed  PubMed Central  Google Scholar 

  • Procaccini G, Ruocco M, Marin-Guiraro L, Dattolo E, Brunet C, D’Esposito D, Lauritano C, Mazzuca S, Serra IA, Bernardo L, Piro A, Beer S, Bjork M, Gullstrom M, Buapet P, Rasmusson LM, Felisberto P, Gobert S, Runcie JW, Silva J, Olive I, Costa MM, Barrote I, Santos R (2017) Depth-specific fluctuations of gene expression and protein abundance modulate the photophysiology in the seagrass Posidonia oceanica. Sci Rep Nat 4:42890

    Article  Google Scholar 

  • Reusch TBH, Veron AS, Preuss C, Weiner J, Wissler L, Beck A, Klages S, Kube M, Reinhardt R, Bornberg-Bauer E (2008) Comparative analysis of expressed sequence tag (EST) libraries in the seagrass Zostera marina subjected to temperature stress. Mar Biotechnol 10:297–309

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Robertson G, Schein J, Chiu R, Corbett R, Field M, Jackman SD, Mungall K, Lee S, Okada HM, Qian JQ, Griffith M, Raymond A, Thiessen N, Cezard T, Butterfield YS, Newsome R, Chan SK, She R, Varhol R, Kamoh B, Prabhu AL, Tam A, Zhao YJ, Moore RA, Hirst M, Marra MA, Jones SJM, Hoodless PA, Birol I (2010) De novo assembly and analysis of RNA-seq data. Nat Methods 7:909–U62

    Article  CAS  PubMed  Google Scholar 

  • Saini S, Sharma I, Pati PK (2015) Versatile roles of brassinosteroid in plants in the context of its homoeostasis, signaling and crosstalks. Front Plant Sci 6:950

    Google Scholar 

  • Schulz MH, Zerbino DR, Vingron M, Birney E (2012) Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics 28:1086–91092

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Touchette BW, Burkholder JM (2007) Carbon and nitrogen metabolism in the seagrass, Zostera marina L.: environmental control of enzymes involved in carbon allocation and nitrogen assimilation. J Exp Mar Biol Ecol 350:216–233

    Google Scholar 

  • Lee HT, Golicz AA, Bayer PE, Jiao Y, Tang H, Paterson AH, Sablok G, Krishnaraj RR, Kenneth Chan C-K, Batley J, Kendrick GA, AWD L, Ralph PJ, Edwards D (2016) The genome of a southern hemisphere seagrass species (Zostera muelleri). Plant Physiol 172:272–283

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Younis A, Siddique M, Kim C, Lim K (2014) RNA interference (RNAi) induced gene silencing: a promising approach of hi-tech plant breeding. Int J Biol Sci 10(10):1150–1158

    Article  PubMed  PubMed Central  Google Scholar 

  • Waycott M, Duarte CM, Carruthers TJ, Orth RJ, Dennison WC, Olyarnik S, Calladine A, Fourqurean JW, Heck KL Jr, Hughes AR, Kendrick GA, Kenworthy WJ, Short FT, Williams SL (2009) Accelerating loss of seagrasses across the globe threatens coastal ecosystems. Proc Natl Acad Sci U S A 106:12377–12381

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Winters G, Nelle P, Fricke B, Rauch G, Reusch TBH (2011) Effects of a simulated heat wave on photophysiology and gene expression of high- and low-latitude populations of Zostera marina. Mar Ecol Prog Ser 435:83–95

    Article  Google Scholar 

  • Wissler L, Codoner FM, Gu J, Reusch TB, Olsen JL, Procaccini G, Bornberg-Bauer E (2011) Back to the sea twice: identifying candidate plant genes for molecular evolution to marine life. BMC Evol Biol 11:8

    Article  PubMed  PubMed Central  Google Scholar 

  • Wissler L, Dattolo E, Moore AD, Reusch TB, Olsen JL, Migliaccio M, Bornberg-Bauer E, Procaccini G (2009) Dr. Zompo: an online data repository for Zostera marina and Posidonia oceanica ESTs. Database (Oxford) 2009:bap009

    Article  CAS  Google Scholar 

  • Xie YL, Wu GX, Tang JB, Luo RB, Patterson J, Liu SL, Huang WH, He GZ, Gu SC, Li SK, Zhou X, Lam TW, Li YR, Xu X, Wong GKS, Wang J (2014) SOAPdenovo-trans: de novo transcriptome assembly with short RNA-Seq reads. Bioinformatics 30:1660–1666

    Article  CAS  PubMed  Google Scholar 

  • Ye CJ, Zhao KF (2003) Osmotically active compounds and their localization in the marine halophyte eelgrass. Biol Plant 46:137–140

    Article  CAS  Google Scholar 

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Authors and Affiliations

  1. Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, Volos, 38446, Greece

    E. E. Malandrakis, T. Danis & A. Exadactylos

  2. Hellenic National Oceanographic Data Centre-HCMR, Elliniko, PC 166 04, Agios Kosmas, Attiki, Greece

    A. Iona

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  1. E. E. Malandrakis
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  2. T. Danis
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  3. A. Iona
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  4. A. Exadactylos
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Correspondence to A. Exadactylos .

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Editors and Affiliations

  1. Climate Change Cluster, Faculty of Science, University of Technology Sydney (UTS), Sydney, New South Wales, Australia

    Manoj Kumar

  2. Climate Change Cluster, Faculty of Science, University of Technology Sydney (UTS), Sydney, New South Wales, Australia

    Peter Ralph

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Malandrakis, E.E., Danis, T., Iona, A., Exadactylos, A. (2017). Abiotic Stress of Seagrasses: Recent Advances in Transcriptomics, Genomics, and Systems Biology. In: Kumar, M., Ralph, P. (eds) Systems Biology of Marine Ecosystems. Springer, Cham. https://doi.org/10.1007/978-3-319-62094-7_6

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