Potential for Genetic Improvement of Sugarcane as a Source of Biomass for Biofuels

Hoang, Nam V.; Furtado, Agnelo; Botha, Frederik C.; Simmons, Blake A.; Henry, Robert J.

doi:10.3389/fbioe.2015.00182

Title: Potential for Genetic Improvement of Sugarcane as a Source of Biomass for Biofuels

Journal Article · 16 November 2015 · Frontiers in Bioengineering and Biotechnology

DOI: https://doi.org/10.3389/fbioe.2015.00182 · OSTI ID:1629715

Hoang, Nam V. ^[1]; Furtado, Agnelo ^[2]; Botha, Frederik C. ^[3]; Simmons, Blake A. ^[4]; Henry, Robert J. ^[2]

Univ. of Queensland, Brisbane, QLD (Australia). Queensland Alliance for Agriculture and Food Innovation; Hue Univ. (Vietnam). College of Agriculture and Forestry; DOE/OSTI
Univ. of Queensland, Brisbane, QLD (Australia). Queensland Alliance for Agriculture and Food Innovation
Univ. of Queensland, Brisbane, QLD (Australia). Queensland Alliance for Agriculture and Food Innovation; Sugar Research Australia, QLD (Australia)
Univ. of Queensland, Brisbane, QLD (Australia). Queensland Alliance for Agriculture and Food Innovation; Joint BioEnergy Institute (JBEI), Emeryville, CA (United States)

Sugarcane (Saccharum spp. hybrids) has great potential as a major feedstock for biofuel production worldwide. It is considered among the best options for producing biofuels today due to an exceptional biomass production capacity, high carbohydrate (sugar + fiber) content, and a favorable energy input/output ratio. To maximize the conversion of sugarcane biomass into biofuels, it is imperative to generate improved sugarcane varieties with better biomass degradability. However, unlike many diploid plants, where genetic tools are well developed, biotechnological improvement is hindered in sugarcane by our current limited understanding of the large and complex genome. Therefore, understanding the genetics of the key biofuel traits in sugarcane and optimization of sugarcane biomass composition will advance efficient conversion of sugarcane biomass into fermentable sugars for biofuel production. The large existing phenotypic variation in Saccharum germplasm and the availability of the current genomics technologies will allow biofuel traits to be characterized, the genetic basis of critical differences in biomass composition to be determined, and targets for improvement of sugarcane for biofuels to be established. Emerging options for genetic improvement of sugarcane for the use as a bioenergy crop are reviewed. This will better define the targets for potential genetic manipulation of sugarcane biomass composition for biofuels.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1629715

Journal Information:: Frontiers in Bioengineering and Biotechnology, Journal Name: Frontiers in Bioengineering and Biotechnology Vol. 3; ISSN 2296-4185

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

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454 sequencing of pooled BAC clones on chromosome 3H of barley Sato, Kazuhiro; Motoi, Yuka; Yamaji, Nami BMC Genomics, Vol. 12, Issue 1 https://doi.org/10.1186/1471-2164-12-246	journal	May 2011
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Biofuel and energy crops: high-yield Saccharinae take center stage in the post-genomics era de Siqueira Ferreira, Savio; Nishiyama, Milton Yutaka; Paterson, Andrew H. Genome Biology, Vol. 14, Issue 6 https://doi.org/10.1186/gb-2013-14-6-210	journal	June 2013
2G ethanol from the whole sugarcane lignocellulosic biomass Pereira, Sandra; Maehara, Larissa; Machado, Cristina Biotechnology for Biofuels, Vol. 8, Issue 1 https://doi.org/10.1186/s13068-015-0224-0	journal	January 2015
Molecular Mapping of Complex Traits Pastina, Maria Marta; Pinto, Luciana Rossini; Oliveira, Karine Miranda Genetics, Genomics and Breeding of Sugarcane https://doi.org/10.1201/EBK1578086849-11	book	August 2010
Diversity Analysis Aitken, Karen; McNeil, Meredith Genetics, Genomics and Breeding of Sugarcane https://doi.org/10.1201/EBK1578086849-7	book	August 2010
Molecular Mapping of Complex Traits Kaczmarek, Malgorzata; Nelson, Matthew N.; Cowling, Wallace A. Genetics, Genomics and Breeding of Vegetable Brassicas https://doi.org/10.1201/b10880-11	book	April 2016
Downregulation of Cinnamyl-Alcohol Dehydrogenase in Switchgrass by RNA Silencing Results in Enhanced Glucose Release after Cellulase Treatment Saathoff, Aaron J.; Sarath, Gautam; Chow, Elaine K. PLoS ONE, Vol. 6, Issue 1 https://doi.org/10.1371/journal.pone.0016416	journal	January 2011
De Novo Assembly and Transcriptome Analysis of Contrasting Sugarcane Varieties Cardoso-Silva, Claudio Benicio; Costa, Estela Araujo; Mancini, Melina Cristina PLoS ONE, Vol. 9, Issue 2 https://doi.org/10.1371/journal.pone.0088462	journal	February 2014
Drought Tolerance Conferred to Sugarcane by Association with Gluconacetobacter diazotrophicus: A Transcriptomic View of Hormone Pathways Vargas, Lívia; Santa Brígida, Ailton B.; Mota Filho, José P. PLoS ONE, Vol. 9, Issue 12 https://doi.org/10.1371/journal.pone.0114744	journal	December 2014
Cold Responsive Gene Expression Profiling of Sugarcane and Saccharum spontaneum with Functional Analysis of a Cold Inducible Saccharum Homolog of NOD26-Like Intrinsic Protein to Salt and Water Stress Park, Jong-Won; Benatti, Thiago R.; Marconi, Thiago PLOS ONE, Vol. 10, Issue 5 https://doi.org/10.1371/journal.pone.0125810	journal	May 2015
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Biofuels: The Past, Present, and a New Vision for the Future Simpson, Tom BioScience, Vol. 59, Issue 11 https://doi.org/10.1525/bio.2009.59.11.2	journal	December 2009
Diploid/Polyploid Syntenic Shuttle Mapping and Haplotype-Specific Chromosome Walking Toward a Rust Resistance Gene ( Bru1 ) in Highly Polyploid Sugarcane (2 n ∼ 12 x ∼ 115) Le Cunff, Loïc; Garsmeur, Olivier; Raboin, Louis Marie Genetics, Vol. 180, Issue 1 https://doi.org/10.1534/genetics.108.091355	journal	August 2008
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Engineering the Oryza sativa cell wall with rice NAC transcription factors regulating secondary wall formation Yoshida, Kouki; Sakamoto, Shingo; Kawai, Tetsushi Frontiers in Plant Science, Vol. 4 https://doi.org/10.3389/fpls.2013.00383	journal	January 2013
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Corrigendum: Revisiting Meiosis in Sugarcane: Chromosomal Irregularities and the Prevalence of Bivalent Configurations Vieira, Maria Lucia C.; Almeida, Carmelice B.; Oliveira, Carlos A. Frontiers in Genetics, Vol. 10 https://doi.org/10.3389/fgene.2019.00287	journal	April 2019
Network Analyses and Data Integration of Proteomics and Metabolomics From Leaves of Two Contrasting Varieties of Sugarcane in Response to Drought Budzinski, Ilara Gabriela Frasson; de Moraes, Fabricio Edgar; Cataldi, Thais Regiani Frontiers in Plant Science, Vol. 10 https://doi.org/10.3389/fpls.2019.01524	journal	November 2019
What Has Been the Focus of Sugarcane Research? A Bibliometric Overview Figueroa-Rodríguez, Katia A.; Hernández-Rosas, Francisco; Figueroa-Sandoval, Benjamín International Journal of Environmental Research and Public Health, Vol. 16, Issue 18 https://doi.org/10.3390/ijerph16183326	journal	September 2019
Additional file 2 of Genome-wide characterization and expression analysis of the growth-regulating factor family in Saccharum Wu, Zilin; Chen, Xinglong; Fu, Danwen figshare https://doi.org/10.6084/m9.figshare.21456020.v1	dataset	January 2022
Additional file 3 of Genome-wide characterization and expression analysis of the growth-regulating factor family in Saccharum Wu, Zilin; Chen, Xinglong; Fu, Danwen figshare https://doi.org/10.6084/m9.figshare.21456023.v1	dataset	January 2022
Additional file 4 of Genome-wide characterization and expression analysis of the growth-regulating factor family in Saccharum Wu, Zilin; Chen, Xinglong; Fu, Danwen figshare https://doi.org/10.6084/m9.figshare.21456026	dataset	January 2022
Additional file 5 of Genome-wide characterization and expression analysis of the growth-regulating factor family in Saccharum Wu, Zilin; Chen, Xinglong; Fu, Danwen figshare https://doi.org/10.6084/m9.figshare.21456029.v1	dataset	January 2022
Additional file 2 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599517.v1	dataset	January 2023
Additional file 3 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599520.v1	dataset	January 2023
Additional file 4 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599523.v1	dataset	January 2023
Additional file 5 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599526.v1	dataset	January 2023
Additional file 6 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599529	dataset	January 2023
Additional file 7 of Characterization and expression profiles of the B-box gene family during plant growth and under low-nitrogen stress in Saccharum Wu, Zilin; Fu, Danwen; Gao, Xiaoning figshare https://doi.org/10.6084/m9.figshare.22599532.v1	dataset	January 2023
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Agronomic evaluation and molecular characterisation of the acetolactate synthase gene in imazapyr tolerant sugarcane (Saccharum hybrid) genotypes Koetle, Motselisi J.; Lloyd Evans, Dyfed; Singh, Varnika Plant Cell Reports, Vol. 37, Issue 8 https://doi.org/10.1007/s00299-018-2306-5	journal	June 2018
Sugarcane ORF finder: the web-application for mining genes from sugarcane genome Kang, Yang Jae Plant Biotechnology Reports, Vol. 13, Issue 5 https://doi.org/10.1007/s11816-019-00574-9	journal	October 2019
High-Throughput Profiling of the Fiber and Sugar Composition of Sugarcane Biomass Hoang, Nam V.; Furtado, Agnelo; Donnan, Laura BioEnergy Research, Vol. 10, Issue 2 https://doi.org/10.1007/s12155-016-9801-8	journal	November 2016
Glucanolytic Rhizobacteria Produce Antifungal Metabolites and Elicit ROS Scavenging System in Sugarcane Zia, Muhammad Atif; Yasmin, Humaira; Shair, Faluk Sugar Tech, Vol. 21, Issue 2 https://doi.org/10.1007/s12355-018-0654-7	journal	August 2018
Transcriptome analysis highlights key differentially expressed genes involved in cellulose and lignin biosynthesis of sugarcane genotypes varying in fiber content Kasirajan, Lakshmi; Hoang, Nam V.; Furtado, Agnelo Scientific Reports, Vol. 8, Issue 1 https://doi.org/10.1038/s41598-018-30033-4	journal	August 2018
A survey of the complex transcriptome from the highly polyploid sugarcane genome using full-length isoform sequencing and de novo assembly from short read sequencing Hoang, Nam V.; Furtado, Agnelo; Mason, Patrick J. BMC Genomics, Vol. 18, Issue 1 https://doi.org/10.1186/s12864-017-3757-8	journal	May 2017
Cell wall metabolism and hexose allocation contribute to biomass accumulation in high yielding extreme segregants of a Saccharum interspecific F2 population Wai, Ching Man; Zhang, Jisen; Jones, Tyler C. BMC Genomics, Vol. 18, Issue 1 https://doi.org/10.1186/s12864-017-4158-8	journal	October 2017
Foreign cry1Ac gene integration and endogenous borer stress-related genes synergistically improve insect resistance in sugarcane Zhou, Dinggang; Liu, Xiaolan; Gao, Shiwu BMC Plant Biology, Vol. 18, Issue 1 https://doi.org/10.1186/s12870-018-1536-6	journal	December 2018
Production and performance of sugarcane seeds (caryopses) from different hybridizations involving RB92579 Diniz, Carlos A.; Ferreira, Vilma M.; Silva, ClÍSsiab. Da Anais da Academia Brasileira de Ciências, Vol. 90, Issue 4 https://doi.org/10.1590/0001-3765201820170271	journal	December 2018
The Challenge of Analyzing the Sugarcane Genome Thirugnanasambandam, Prathima P.; Hoang, Nam V.; Henry, Robert J. Frontiers in Plant Science, Vol. 9 https://doi.org/10.3389/fpls.2018.00616	journal	May 2018
What Has Been the Focus of Sugarcane Research? A Bibliometric Overview Figueroa-Rodríguez, Katia A.; Hernández-Rosas, Francisco; Figueroa-Sandoval, Benjamín International Journal of Environmental Research and Public Health, Vol. 16, Issue 18 https://doi.org/10.3390/ijerph16183326	journal	September 2019

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