PMID- 29299059
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20220410
IS  - 1754-6834 (Print)
IS  - 1754-6834 (Electronic)
IS  - 1754-6834 (Linking)
VI  - 10
DP  - 2017
TI  - Development and use of a switchgrass (Panicum virgatum L.) transformation 
      pipeline by the BioEnergy Science Center to evaluate plants for reduced cell wall 
      recalcitrance.
PG  - 309
LID - 10.1186/s13068-017-0991-x [doi]
LID - 309
AB  - BACKGROUND: The mission of the BioEnergy Science Center (BESC) was to enable 
      efficient lignocellulosic-based biofuel production. One BESC goal was to decrease 
      poplar and switchgrass biomass recalcitrance to biofuel conversion while not 
      affecting plant growth. A transformation pipeline (TP), to express transgenes or 
      transgene fragments (constructs) in these feedstocks with the goal of 
      understanding and decreasing recalcitrance, was considered essential for this 
      goal. Centralized data storage for access by BESC members and later the public 
      also was essential. RESULTS: A BESC committee was established to codify 
      procedures to evaluate and accept genes into the TP. A laboratory information 
      management system (LIMS) was organized to catalog constructs, plant lines and 
      results from their analyses. One hundred twenty-eight constructs were accepted 
      into the TP for expression in switchgrass in the first 5 years of BESC. Here we 
      provide information on 53 of these constructs and the BESC TP process. Eleven of 
      the constructs could not be cloned into an expression vector for transformation. 
      Of the remaining constructs, 22 modified expression of the gene target. 
      Transgenic lines representing some constructs displayed decreased recalcitrance 
      in the field and publications describing these results are tabulated here. 
      Transcript levels of target genes and detailed wall analyses from transgenic 
      lines expressing six additional tabulated constructs aimed toward modifying 
      expression of genes associated with wall structure (xyloglucan and lignin 
      components) are provided. Altered expression of xyloglucan 
      endotransglucosylase/hydrolases did not modify lignin content in transgenic 
      plants. Simultaneous silencing of two hydroxycinnamoyl CoA:shikimate 
      hydroxycinnamoyl transferases was necessary to decrease G and S lignin monomer 
      and total lignin contents, but this reduced plant growth. CONCLUSIONS: A TP to 
      produce plants with decreased recalcitrance and a LIMS for data compilation from 
      these plants were created. While many genes accepted into the TP resulted in 
      transgenic switchgrass without modified lignin or biomass content, a group of 
      genes with potential to improve lignocellulosic biofuel yields was identified. 
      Results from transgenic lines targeting xyloglucan and lignin structure provide 
      examples of the types of information available on switchgrass lines produced 
      within BESC. This report supplies useful information when developing coordinated, 
      large-scale, multi-institutional reverse genetic pipelines to improve crop 
      traits.
FAU - Nelson, Richard S
AU  - Nelson RS
AUID- ORCID: 0000-0003-2086-6998
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Stewart, C Neal Jr
AU  - Stewart CN Jr
AD  - Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996 USA. 
      ISNI: 0000 0001 2315 1184. GRID: grid.411461.7
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Gou, Jiqing
AU  - Gou J
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Holladay, Susan
AU  - Holladay S
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Gallego-Giraldo, Lina
AU  - Gallego-Giraldo L
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - BioDiscovery Institute and Department of Biological Sciences, University of North 
      Texas, Denton, TX 76203 USA. ISNI: 0000 0001 1008 957X. GRID: grid.266869.5
FAU - Flanagan, Amy
AU  - Flanagan A
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Mann, David G J
AU  - Mann DGJ
AD  - Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996 USA. 
      ISNI: 0000 0001 2315 1184. GRID: grid.411461.7
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Hisano, Hiroshi
AU  - Hisano H
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Wuddineh, Wegi A
AU  - Wuddineh WA
AD  - Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996 USA. 
      ISNI: 0000 0001 2315 1184. GRID: grid.411461.7
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Poovaiah, Charleson R
AU  - Poovaiah CR
AD  - Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996 USA. 
      ISNI: 0000 0001 2315 1184. GRID: grid.411461.7
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Srivastava, Avinash
AU  - Srivastava A
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Biswal, Ajaya K
AU  - Biswal AK
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - Complex Carbohydrate Research Center, University of Georgia, Athens, GA 30602 
      USA. ISNI: 0000 0004 1936 738X. GRID: grid.213876.9
AD  - Department of Biochemistry and Molecular Biology, University of Georgia, Athens, 
      GA 30602 USA. ISNI: 0000 0004 1936 738X. GRID: grid.213876.9
FAU - Shen, Hui
AU  - Shen H
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - BioDiscovery Institute and Department of Biological Sciences, University of North 
      Texas, Denton, TX 76203 USA. ISNI: 0000 0001 1008 957X. GRID: grid.266869.5
FAU - Escamilla-Trevino, Luis L
AU  - Escamilla-Trevino LL
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - BioDiscovery Institute and Department of Biological Sciences, University of North 
      Texas, Denton, TX 76203 USA. ISNI: 0000 0001 1008 957X. GRID: grid.266869.5
FAU - Yang, Jiading
AU  - Yang J
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Hardin, C Frank
AU  - Hardin CF
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Nandakumar, Rangaraj
AU  - Nandakumar R
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Fu, Chunxiang
AU  - Fu C
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Zhang, Jiyi
AU  - Zhang J
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Xiao, Xirong
AU  - Xiao X
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Percifield, Ryan
AU  - Percifield R
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - Department of Genetics, University of Georgia, Athens, GA 30602 USA. ISNI: 0000 
      0004 1936 738X. GRID: grid.213876.9
FAU - Chen, Fang
AU  - Chen F
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - BioDiscovery Institute and Department of Biological Sciences, University of North 
      Texas, Denton, TX 76203 USA. ISNI: 0000 0001 1008 957X. GRID: grid.266869.5
FAU - Bennetzen, Jeffrey L
AU  - Bennetzen JL
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - Department of Genetics, University of Georgia, Athens, GA 30602 USA. ISNI: 0000 
      0004 1936 738X. GRID: grid.213876.9
FAU - Udvardi, Michael
AU  - Udvardi M
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Mazarei, Mitra
AU  - Mazarei M
AD  - Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996 USA. 
      ISNI: 0000 0001 2315 1184. GRID: grid.411461.7
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Dixon, Richard A
AU  - Dixon RA
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - BioDiscovery Institute and Department of Biological Sciences, University of North 
      Texas, Denton, TX 76203 USA. ISNI: 0000 0001 1008 957X. GRID: grid.266869.5
FAU - Wang, Zeng-Yu
AU  - Wang ZY
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Tang, Yuhong
AU  - Tang Y
AD  - Noble Research Institute, LLC, Ardmore, OK 73401 USA. ISNI: 0000 0004 0370 5663. 
      GRID: grid.419447.b
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
FAU - Mohnen, Debra
AU  - Mohnen D
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
AD  - Complex Carbohydrate Research Center, University of Georgia, Athens, GA 30602 
      USA. ISNI: 0000 0004 1936 738X. GRID: grid.213876.9
AD  - Department of Biochemistry and Molecular Biology, University of Georgia, Athens, 
      GA 30602 USA. ISNI: 0000 0004 1936 738X. GRID: grid.213876.9
FAU - Davison, Brian H
AU  - Davison BH
AD  - BioEnergy Science Center (BESC), Oak Ridge National Laboratory, Oak Ridge, TN 
      37831 USA. ISNI: 0000 0004 0446 2659. GRID: grid.135519.a
LA  - eng
PT  - Journal Article
DEP - 20171222
PL  - England
TA  - Biotechnol Biofuels
JT  - Biotechnology for biofuels
JID - 101316935
PMC - PMC5740764
OTO - NOTNLM
OT  - Bioenergy
OT  - Cell wall
OT  - Ethanol
OT  - HCT
OT  - Lignin
OT  - Lignocellulosic feedstocks
OT  - Recalcitrance
OT  - Reverse genetics
OT  - Transformation pipeline
OT  - XTH
EDAT- 2018/01/05 06:00
MHDA- 2018/01/05 06:01
PMCR- 2017/12/22
CRDT- 2018/01/05 06:00
PHST- 2017/09/14 00:00 [received]
PHST- 2017/12/05 00:00 [accepted]
PHST- 2018/01/05 06:00 [entrez]
PHST- 2018/01/05 06:00 [pubmed]
PHST- 2018/01/05 06:01 [medline]
PHST- 2017/12/22 00:00 [pmc-release]
AID - 991 [pii]
AID - 10.1186/s13068-017-0991-x [doi]
PST - epublish
SO  - Biotechnol Biofuels. 2017 Dec 22;10:309. doi: 10.1186/s13068-017-0991-x. 
      eCollection 2017.