Near-infrared spectroscopy enables the genetic analysis of chemical properties in a large set of wood samples from Populus nigra (L.) natural populations

Industrial Crops and Products

Volumn 107, Issue , 2017, Pages 159-171

  Gebreselassie, Mesfin Nigussie ^a   Ader, Kévin ^a,b   Boizot, Nathalie ^a,b   Millier, Frédéric ^a,b   Charpentier, Jean Paul ^a,b   Alves, Ana ^c   Simões, Rita ^c   Rodrigues, José Carlos ^c   Bodineau, Guillaume ^b   Fabbrini, Francesco ^d,e   Sabatti, Maurizio ^d   Bastien, Catherine ^a   Segura, Vincent ^a  

^a National Institute for Agricultural Research   (France)

^b CEMAGREF   (France)

^c Universidade de Lisboa   (Portugal)

^d UNIVERSITY OF TUSCIA   (Italy)

^e Alasia Franco Vivai   (Italy)

Author keywords

Cell wall composition; Clonal repeatability; Genetic variation; Genotype Environment interaction; Near infrared spectroscopy; Populus nigra L.

Indexed keywords

BIOMASS; CLONE CELLS; FORESTRY; GENES; INFRARED DEVICES; NEAR INFRARED SPECTROSCOPY; ROTATION; SPECTRUM ANALYSIS; WOOD CHEMICALS; WOOD PRODUCTS;

CELL WALL COMPOSITION; CLONAL REPEATABILITY; COMPOSITIONAL ANALYSIS; GENETIC VARIATION; HIGH-THROUGHPUT TECHNIQUE; LIGNOCELLULOSIC BIOMASS; POPULUS NIGRA L; SITE SPECIFIC CALIBRATION;

CHEMICAL ANALYSIS;

ASSESSMENT METHOD; BIOENERGY; BREEDING; CELLS AND CELL COMPONENTS; CHEMICAL PROPERTY; CLONE; COPPICE; DECIDUOUS TREE; GENETIC ANALYSIS; GENETIC VARIATION; GENOTYPE-ENVIRONMENT INTERACTION; INFRARED SPECTROSCOPY; NEAR INFRARED; RANKING; WOOD;

CELLS; CHEMICAL COMPOSITION; ENVIRONMENTS; POPULUS NIGRA;

POPULUS NIGRA;

EID: 85020038787     PISSN: 09266690     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.indcrop.2017.05.013     Document Type: Article

References (62)

1. Abramson, M., Shoseyov, O., Shani, Z., Plant cell wall reconstruction toward improved lignocellulosic production and processability. Plant Sci. 178 (2010), 61–72, 10.1016/j.plantsci.2009.11.003.
2. Alves, A., Schwanninger, M., Pereira, H., Rodrigues, J., Calibration of NIR to assess lignin composition (H/G ratio) in maritime pine wood using analytical pyrolysis as the reference method. Holzforschung 60 (2006), 29–31, 10.1515/HF.2006.006.
3. Alves, A., Simões, R., Stackpole, D., Vaillancourt, R., Potts, B., Schwanninger, M., Rodrigues, J., Determination of the syringyl/guaiacyl (S/G) ratio of Eucalyptus globulus Labill. wood lignin by NIR-based PLS-R models using analytical pyrolysis as the reference method. J. Near Infrared Spectrosc. 19 (2011), 343–348.
4. Alves, A.M.M., Simões, R.F.S., Santos, C.A., Potts, B.M., Rodrigues, J., Schwanninger, M., Determination of Eucalyptus globulus wood extractives content by near infrared-based partial least squares regression models: comparison between extraction procedures. J. Near Infrared Spectrosc. 20 (2012), 275–285, 10.1255/jnirs.987.
5. Araus, J.L., Cairns, J.E., Field high-throughput phenotyping: the new crop breeding frontier. Trends Plant Sci. 19 (2014), 52–61, 10.1016/j.tplants.2013.09.008.
6. Baillères, H., Davrieux, F., Ham-Pichavant, F., Near infrared analysis as a tool for rapid screening of some major wood characteristics in a eucalyptus breeding program. Ann. For. Sci. 59 (2002), 479–490, 10.1051/forest:2002032.
7. Bradshaw, H.D., Ceulemans, R., Davis, J., Stettler, R., Emerging model systems in plant biology: poplar (Populus) as a model forest tree. J. Plant Growth Regul. 19 (2000), 306–313, 10.1007/s003440000030.
8. Cagelli, L., Lefevre, F., The conservation of Populus nigra L. and gene flow with cultivated poplars in Europe. For. Genet. 2 (1995), 135–144.
9. Ceulemans, R., Deraedt, W., Production physiology and growth potential of poplars under short-rotation forestry culture. For. Ecol. Manage. 121 (1999), 9–23, 10.1016/S0378-1127(98)00564-7.
10. Costa e Silva, J., Borralho, N.M.G., Araújo, J.A., Vaillancourt, R.E., Potts, B.M., Silva, J.C.E., Araujo, J.A., Genetic parameters for growth, wood density and pulp yield in Eucalyptus globulus. Tree Genet. Genomes 5 (2008), 291–305, 10.1007/s11295-008-0174-9.
11. Da Silva Perez, D., Guillemain, A., Alazard, P., Plomion, C., Rozenberg, P., Carlos Rodrigues, J., Alves, A., Chantre, G., Improvement of Pinus pinaster Ait elite trees selection by combining near infrared spectroscopy and genetic tools. Holzforschung 61 (2007), 611–622, 10.1515/HF.2007.118.
12. Dutkowski, G.W., Silva, J.C.E., Gilmour, A.R., Lopez, G.A., Spatial analysis methods for forest genetic trials. Can. J. For. Res. 32 (2002), 2201–2214, 10.1139/x02-111.
13. Frison, E., Lefevre, F., de Vries, S., Turok, J., Populus Nigra Network: Report of the First Meeting 3–5 October 1994 Izmit, Turkey., 1994, IPGRI, Rome, Izmit, Turkey.
14. Gaspar, M.J., Alves, A., Louzada, J.L., Morais, J., Santos, A., Fernandes, C., Almeida, M.H., Rodrigues, J.C., Genetic variation of chemical and mechanical traits of maritime pine (Pinus pinaster Aiton). Correlations with wood density components. Ann. For. Sci. 68 (2011), 255–265, 10.1007/s13595-011-0034-x.
15. Guerra, F.P., Wegrzyn, J.L., Sykes, R., Davis, M.F., Stanton, B.J., Neale, D.B., Association genetics of chemical wood properties in black poplar (Populus nigra). New Phytol. 197 (2013), 162–176, 10.1111/nph.12003.
16. Guerra, F.P., Richards, J.H., Fiehn, O., Famula, R., Stanton, B.J., Shuren, R., Sykes, R., Davis, M.F., Neale, D.B., Analysis of the genetic variation in growth, ecophysiology, and chemical and metabolomic composition of wood of Populus trichocarpa provenances. Tree Genet. Genomes, 12, 2016, 10.1007/s11295-015-0965-8.
17. Guet, J., Fabbrini, F., Fichot, R., Sabatti, M., Bastien, C., Brignolas, F., Genetic variation for leaf morphology, leaf structure and leaf carbon isotope discrimination in European populations of black poplar (Populus nigra L.). Tree Physiol. 35 (2015), 850–863, 10.1093/treephys/tpv056.
18. Hamilton, M.G., Raymond, C., Harwood, C., Potts, B., Genetic variation in Eucalyptus nitens pulpwood and wood shrinkage traits. Tree Genet. Genomes 5 (2009), 307–316, 10.1007/s11295-008-0179-4.
19. Henderson, C.R., Applications of Linear Models in Animal Breeding Models, 384, 1984, Univ. Guelph, 10.1002/9780470316856 (ch7).
20. Isik, F., Mora, C.R., Schimleck, L.R., Genetic variation in Pinus taeda wood properties predicted using non-destructive techniques. Ann. For. Sci. 68 (2011), 283–293, 10.1007/s13595-011-0035-9.
21. Jiang, W., Han, G., Via, B.K., Tu, M., Liu, W., Fasina, O., Rapid assessment of coniferous biomass lignin-carbohydrates with near-infrared spectroscopy. Wood Sci. Technol. 48 (2014), 109–122, 10.1007/s00226-013-0590-3.
22. Kačík, F., Ďurkovič, J., Kačíková, D., Chemical profiles of wood components of poplar clones for their energy utilization. Energies 5 (2012), 5243–5256, 10.3390/en5125243.
23. Kennard, R., Stone, L.A., Computer aided design of experiments. Technometrics 11 (1969), 137–148.
24. Kube, P.D., Raymond, C.A., Banham, P.W., Genetic parameters for diameter, basic density, cellulose content and fibre properties for Eucalyptus nitens. For. Genet. 8 (2001), 285–294.
25. Li, B.B., Morris, J., Martin, E.B., Model selection for partial least squares regression. Chemom. Intell. Lab. Syst. 64 (2002), 79–89.
26. Li, H., Liang, Y., Xu, Q., Cao, D., Key wavelengths screening using competitive adaptive reweighted sampling method for multivariate calibration. Anal. Chim. Acta 648 (2009), 77–84, 10.1016/j.aca.2009.06.046.
27. Lin, C.-S., Binns, M.R., Lefkovitch, L.P., Stability analysis: where do we stand?. Crop Sci. 26 (1986), 894–900.
28. Lupoi, J.S., Singh, S., Simmons, B.A., Henry, R.J., Assessment of lignocellulosic biomass using analytical spectroscopy: an evolution to high-throughput techniques. Bioenergy Res. 7 (2014), 1–23, 10.1007/s12155-013-9352-1.
29. Lynch, M., Walsh, B., Genetics and Analysis of Quantitative Traits. 1998, Sinauer Associates Sunderland, MA.
30. Mevik, B.H., Wehrens, R., The pls package: principal component and partial least squares regression in R. J. Stat. Softw. 18 (2007), 1–23, 10.1159/000323281.
31. Muñoz, F., Sanchez, L., BreedR: Statistical Methods for Forest Genetic Resources Analysts. 2015.
32. Muir, W., Nyquist, W.E., Xu, S., Alternative partitioning of the genotype-by-environment interaction. Theor. Appl. Genet. 84 (1992), 193–200, 10.1007/BF00224000.
33. Neale, D.B., Kremer, A., Forest tree genomics: growing resources and applications. Nat. Rev. Genet. 12 (2011), 111–122, 10.1038/nrg2931.
34. Poke, F.S., Potts, B.M., Vaillancourt, R.E., Raymond, C.A., Genetic parameters for lignin, extractives and decay in Eucalyptus globulus. Ann. For. Sci. 63 (2006), 813–821, 10.1051/forest:2006080.
35. Porth, I., Klápště, J., Skyba, O., Lai, B.S.K., Geraldes, A., Muchero, W., Tuskan, G.A., Douglas, C.J., El-Kassaby, Y.A., Mansfield, S.D., Populus trichocarpa cell wall chemistry and ultrastructure trait variation, genetic control and genetic correlations. New Phytol. 197 (2013), 777–790, 10.1111/nph.12014.
36. R Core Team, R: a Language and Environment for Statistical Computing. R Foundation for Statistical Computing. 2015, R Core Team, Vienna, Austria URL https://www.R-project.org/.
37. Ragauskas, A.J., Nagy, M., Kim, D.H., Eckert, C.A., Hallett, J.P., Liotta, C.L., From wood to fuels: integrating biofuels and pulp production. Ind. Biotechnol. 2 (2006), 55–65, 10.1089/ind.2006.2.55.
38. Raymond, C.A., Schimleck, L.R., Development of near infrared reflectance analysis calibrations for estimating genetic parameters for cellulose content in Eucalyptus globulus. Can. J. For. Res. Can. Rech. For. 32 (2002), 170–176, 10.1139/X01-174.
39. Raymond, C.A., Schimleck, L.R., Muneri, A., Michell, A.J., Genetic parameters and genotype-by-environment interactions for pulp yield predicted using near infrared reflectance analysis and pulp productivity in Eucalyptus globulus. For. Genet. 8 (2001), 213–224.
40. Robinson, A.R., Mansfield, S.D., Rapid analysis of poplar lignin monomer composition by a streamlined thioacidolysis procedure and near-infrared reflectance-based prediction modeling. Plant J. 58 (2009), 706–714, 10.1111/j.1365-313X.2009.03808.x.
41. Rodrigues, J., Meier, D., Faix, O., Pereira, H., Determination of tree to tree variation in syringyl/guaiacyl ratio of Eucalyptus globulus wood lignin by analytical pyrolysis. J. Anal. Appl. Pyrolysis 48 (1999), 121–128, 10.1016/S0165-2370(98)00134-X.
42. Rodrigues, J., Graça, J., Pereira, H., Influence of tree eccentric growth on syringyl/guaiacyl ratio in Eucalyptus globulus wood lignin assessed by analytical pyrolysis. J. Anal. Appl. Pyrolysis 58–59 (2001), 481–489, 10.1016/S0165-2370(00)00121-2.
43. Rubin, E.M., Himmel, M.E., Ding, S., Johnson, D.K., Adney, W.S., Biomass Recalcitrance: Nat. 454 (2007), 804–807, 10.1126/science.1137016.
44. Rubin, E.M., Genomics of cellulosic biofuels. Nature 454 (2008), 841–845, 10.1038/nature07190.
45. Sannigrahi, P., Ragauskas, A.J., Tuskan, G.A., Poplar as a feedstock for biofuels: a review of compositional characteristics. Biofuels Bioprod. Biorefin. 4 (2010), 209–226, 10.1002/bbb.206.
46. Schimleck, L.R., Kube, P.D., Raymond, C.A., Genetic improvement of kraft pulp yield in Eucalyptus nitens using cellulose content determined by near infrared spectroscopy. Can. J. For. Res. 34 (2004), 2362–2370, 10.1139/X04-119.
47. Schubert, C., Can biofuels finally take center stage?. Nat. Biotechnol. 24 (2006), 777–784, 10.1038/nbt0706-777.
48. Schwanninger, M., Rodrigues, J.C., Gierlinger, N., Hinterstoisser, B., Determination of lignin content in Norway spruce wood by Fourier transformed near infrared spectroscopy and partial least squares regression. Part 1. Wavenumber-selection and evaluation of the selected range. J. Near Infrared Spectrosc. 19 (2011), 319–329, 10.1255/jnirs.945.
49. Schwanninger, M., Rodrigues, J., Hinterstoisser, B., Determination of lignin content in Norway spruce wood by Fourier transformed near infrared spectroscopy and partial least squares regression analysis. Part 2: Development and evaluation of the final model. J. Near Infrared Spectrosc. 19 (2011), 331–341.
50. Shelbourne, C.J.A., Genotype-environment interaction: its study and its implications in forest tree improvement. Proc. IUFRO Genet.-SABARAO Joint Symp. Tokyo B-1:I (1972), 1–28.
51. Stackpole, D.J., Vaillancourt, R.E., Downes, G.M., Harwood, C.E., Potts, B.M., Genetic control of kraft pulp yield in Eucalyptus globulus. Can. J. For. Res. 40 (2010), 917–927, 10.1139/X10-035.
52. Stackpole, D.J., Vaillancourt, R.E., Alves, A., Rodrigues, J., Potts, B.M., Genetic variation in the chemical components of Eucalyptus globulus Wood. G3: Genes Genomes Genet. G3:1 (2011), 151–159, 10.1534/g3.111.000372.
53. Stevens, A., Ramirez-Lopez, L., An introduction to the prospectr package. 2013.
54. Sticklen, M.B., Plant genetic engineering for biofuel production: towards affordable cellulosic ethanol. Nat. Rev. Genet. 9 (2008), 433–443, 10.1038/nrg2336.
55. Tsuchikawa, S., Kobori, H., A review of recent application of near infrared spectroscopy to wood science and technology. J. Wood Sci. 61 (2015), 213–220, 10.1007/s10086-015-1467-x.
56. Wegrzyn, J.L., Eckert, A.J., Choi, M., Lee, J.M., Stanton, B.J., Sykes, R., Davis, M.F., Tsai, C.J., Neale, D.B., Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem. New Phytol. 188 (2010), 515–532, 10.1111/j.1469-8137.2010.03415.x.
57. Yang, W., Guo, Z., Huang, C., Duan, L., Chen, G., Jiang, N., Fang, W., Feng, H., Xie, W., Lian, X., Wang, G., Luo, Q., Zhang, Q., Liu, Q., Xiong, L., Combining high-throughput phenotyping and genome-wide association studies to reveal natural genetic variation in rice. Nat. Commun., 5, 2014, 5087, 10.1038/ncomms6087.
58. Yeh, T.F., Yamada, T., Capanema, E., Chang, H.M., Chiang, V., Kadla, J.F., Rapid screening of wood chemical component variations using transmittance near-infrared spectroscopy. J. Agric. Food Chem. 53 (2005), 3328–3332, 10.1021/jf0480647.
59. Zhang, J., Novaes, E., Kirst, M., Peter, G.F., Comparison of pyrolysis mass spectrometry and near infrared spectroscopy for genetic analysis of lignocellulose chemical composition in Populus. Forests 5 (2014), 466–481, 10.3390/f5030466.
60. Zhang, P., Wu, F., Kang, X., Chemical properties of wood are under stronger genetic control than growth traits in Populus tomentosa Carr. Ann. For. Sci. 72 (2015), 89–97, 10.1007/s13595-014-0401-5.
61. signal developers, Signal: Signal Processing. 2013 URL: http://r-forge.r-project.org/projects/signal/.
62. Zhou, G., Taylor, G., Polle, A., FTIR-ATR-based prediction and modelling of lignin and energy contents reveals independent intra-specific variation of these traits in bioenergy poplars. Plant Methods 7 (2011), 1–10, 10.1186/1746-4811-7-9.