Search NASA⌕ Search
Home/Archive/DOE OSTI

DOE OSTI · 2997471

RAD-seq genotypes for a Miscanthus sacchariflorus diversity panel

Clark, Lindsay·Njuguna, Joyce·Jin, Xiaoli (ORCID:000000034829176X)·Petersen, Karen·Anzoua, Kossanou G.·Bagmet, Larissa·Chebukin, Pavel·Deuter, Martin·Dzyubenko, Elena (ORCID:0000000345761527)·Dzyubenko, Nicolay (ORCID:0000000302505814)·Heo, Kweon·Johnson, Douglas A.·Jørgensen, Uffe·Kjeldsen, Jens B. (ORCID:0000000218564758)·Nagano, Hironori·Peng, Junhua·Sabitov, Andrey·Yamada, Toshihiko (ORCID:0000000278456556)·Yoo, Ji Hye (ORCID:0000000205948488)·Yu, Chang Yeon (ORCID:0000000292248788)·Long, Stephen P.·Sacks, Erik
View original source ↗Read source document ↗Export metadata ↓

Abstract

Restriction site-associated DNA sequencing (RAD-seq) data from 643 Miscanthus accessions from a diversity panel, including 613 Miscanthus sacchariflorus, three M. sinensis, and 27 M. xgiganteus. DNA was digested with PstI and MspI, and single-end Illumina sequencing was performed adjacent to the PstI site. Variant and genotype calling was performed with TASSEL-GBSv2, using the Miscanthus sinensis v7.1 reference genome from Phytozome 12 (https://phytozome.jgi.doe.gov). Additional ploidy-aware genotype calling was performed by polyRAD v1.1.

Explore related subjects

biomassgenetic diversitygenotyping-by-sequencing (GBS)grasssingle nucleotide polymorphism (SNP)variant call format (VCF)

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Clark, Lindsay, Njuguna, Joyce, Jin, Xiaoli (ORCID:000000034829176X), Petersen, Karen, Anzoua, Kossanou G., Bagmet, Larissa, Chebukin, Pavel, Deuter, Martin, Dzyubenko, Elena (ORCID:0000000345761527), Dzyubenko, Nicolay (ORCID:0000000302505814), Heo, Kweon, Johnson, Douglas A., Jørgensen, Uffe, Kjeldsen, Jens B. (ORCID:0000000218564758), Nagano, Hironori, Peng, Junhua, Sabitov, Andrey, Yamada, Toshihiko (ORCID:0000000278456556), Yoo, Ji Hye (ORCID:0000000205948488), Yu, Chang Yeon (ORCID:0000000292248788), Long, Stephen P., Sacks, Erik. 2020-01-01. RAD-seq genotypes for a Miscanthus sacchariflorus diversity panel. https://doi.org/10.13012/b2idb-8170405_v1

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related reports

DOE OSTI2026

Sustainable H 2 -Rich Syngas Production via Microwave-Assisted vs Conventional Catalysis of Pinewood

Catalytic gasification of biomass is a promising method for producing hydrogen-rich syngas, which is a valuable resource for cleanenergy applications. In this study, microwave-assisted biomass gasification was compared with conventional thermally driven biomass gasification using pinewood as the biomass without the use of external gasifying agents (such as air, steam, and CO 2 ), under non-catalytic and catalytic conditions. The catalysts consisted of either an iron or a nickel catalyst, and the pinewood used as biomass contained 42% oxygen. This comparative analysis explores the differences in reaction chemistry, product yields, and the role of key reactions such as the water gas shift (WGS) reaction, Boudouard reaction, etc. The gas-phase and liquid-phase products were analyzed using online gas chromatography, and the fresh and spent catalysts were analyzed using X-ray diffraction (XRD) techniques. It was found that microwave-assisted gasification offers advantages in terms of enhanced reaction efficiency, catalyst stability, and hydrogen yield. For the microwave-assisted reaction, the gas yield reached 87%, the char yield was 12.1%, and the tar yield was less than 1% (0.793%) at 550 °C. In contrast, thermal-assisted gasification using the same catalyst produced a gas yield of 85.796%, char yield of 11.438%, and higher tar yield of 2.8% at 900 °C. The higher microwave-assisted performance was attributed to faster heating and better control over reaction conditions, higher reaction rates, and more favorable conditions for hydrogen production.

biomass↗
DOE OSTI2025

The stable carbon isotope fractionation of methanogenesis products at complete carbon consumption

The stable carbon isotope signature (δ 13 C) of methane (CH 4 ) is used to discriminate between biological, thermogenic, and abiotic sources. Methanogens, or methane producing archaea, inhabit a broad range of chemical conditions. Many of these environments are replete in dissolved inorganic carbon (DIC), causing isotopically depleted δ 13 C biogenic CH 4 . However, some extreme environments inhabited by methanogens, such as serpentinising systems, exhibit low carbon dioxide (CO 2 ) availability, replete H 2 , and isotopically enriched δ 13 C CH 4 that is outside the known biogenic range. We measured the δ 13 C of CO 2 , biomass, lipids, and CH 4 during hydrogenotrophic methanogenesis under hydrogen replete conditions with a limited carbon pool to investigate carbon isotope dynamics at complete DIC consumption. As theory predicts, we found that the final, accumulated methane δ 13 C values closely reflect the δ 13 C of the initial DIC supply, and that methane is more 13 C enriched than biomass and lipids. This provides the first experimental evidence that methanogens can achieve complete carbon consumption and thus can produce accumulated CH 4 products that isotopically reflect the initial CO 2 . These data show that the range of possible δ 13 C values from biogenic methane needs to be expanded for natural environments impacted by extreme carbon limitation.

biomass↗
DOE OSTI2025

Biotransformation of Phenolics in Spent Liquor from Aqueous Ammonia Pretreatment

Spent liquors of biomass pretreatment provide a source for renewable chemical production. These liquors require treatment before being discharged; otherwise, they negatively impact the environment. Herein, spent liquors from aqueous ammonia pretreatment of poplar wood are characterized for phenolic content via liquid chromatography–mass spectrometry and nuclear magnetic resonance spectroscopy. The main phenolics are phenol, p-hydroxybenzamide (pHBAm), and p-hydroxybenzoic acid (pHBA), of which pHBAm and pHBA are produced from the ester-linked p-hydroxybenzoates in poplar wood. Phenol is produced from pHBA via decarboxylation. The potential biotransformation of the extracted phenolics into 2-pyrone-4,6-dicarboxylic acid (PDC) is assessed using an engineered strain of Novosphingobium aromaticivorans DSM12444 (PDC strain). Biotransformation of pHBAm to PDC is shown to be possible in the presence of pHBA, but not when pHBAm is the sole phenolic substrate, this is the first reported observation of N. aromaticivorans producing PDC from an aromatic amide. The phenol present is not transformed to PDC and does not inhibit PDC production. This study demonstrates that the phenolic amide in spent liquor from ammonia pretreatment can be valorized via biotransformation using N. aromaticivorans, which adds to the growing versatility of N. aromaticivorans as a microbial chassis for converting plant-derived compounds to useful products.

biomass↗