1
|
Gao L, Yu Z, Wang S, Hou Y, Zhang S, Zhou C, Wu X. A new paradigm in lignocellulolytic enzyme cocktail optimization: Free from expert-level prior knowledge and experimental datasets. BIORESOURCE TECHNOLOGY 2023; 388:129758. [PMID: 37717701 DOI: 10.1016/j.biortech.2023.129758] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 09/05/2023] [Accepted: 09/07/2023] [Indexed: 09/19/2023]
Abstract
Effectively pairing diverse lignocellulolytic enzyme cocktails with intricately structured lignocellulosic substrates is an enduring challenge for science and technology. To date, extensive trial-and-error remains the primary approach and no deep-learning methods were developed to address it due to limited experimental data and incomplete expert-level knowledge of enzyme-cocktail-substrate structure-dynamics-function relationships. Here, a novel model is developed to tackle this issue in efficient, cost-effective, and high-throughput manners. It needs no pre-labeled datasets, instead utilizing simple features, eliminating the reliance on expert-level prior knowledge of reaction mechanisms. Experimentally optimal combinations were found within predicted ranges of tailor-made combinations with precision of 91.98%, covering 80.00% of overall top-100. Practical tests demonstrated its effectiveness in narrowing down potential optimal combinations, speeding up targeted screening, and enabling efficient degradation of lignocellulosic biomass. The method has good applications in artificial proteins biosynthesis from low-value lignocellulosic straw, providing alternative solutions for biomass biorefining challenges in complex enzyme-cocktail-substrate interactions.
Collapse
Affiliation(s)
- Le Gao
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China
| | - Zhuohang Yu
- School of Engineering, Dali University, Dali, Yunnan 671003, China
| | - Shengjie Wang
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China
| | - Yuejie Hou
- School of Engineering, Dali University, Dali, Yunnan 671003, China
| | - Shouchang Zhang
- School of Engineering, Dali University, Dali, Yunnan 671003, China
| | - Chichun Zhou
- School of Engineering, Dali University, Dali, Yunnan 671003, China.
| | - Xin Wu
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, National Technology Innovation Center of Synthetic Biology, Tianjin 300308, China.
| |
Collapse
|
2
|
Wei T, Chen H, Wu D, Gao D, Cai Y, Cao X, Xu H, Yang J, Guo P. Response surface methodology for the mixed fungal fermentation of Codonopsis pilosula straw using Trichoderma reesei and Coprinus comatus. PeerJ 2023; 11:e15757. [PMID: 37601264 PMCID: PMC10434135 DOI: 10.7717/peerj.15757] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2022] [Accepted: 06/26/2023] [Indexed: 08/22/2023] Open
Abstract
The objective of this study was to investigate the cellulose degradation rate (CDR) and lignin degradation rate (LDR) of Codonopsis pilosula straw (CPS) and the optimal fermentation parameters for mixed fungal fermentation. Single-factor tests were used to study the effects of the fungal ratio (Trichoderma reesei: Coprinus comatus), fungal inoculum, corn flour content, and fermentation time on the degradation rate of cellulose and lignin. Based on the results of this experiment, the optimal fermentation factors were identified, and the effects of various factors and their interactions on the degradation rates of cellulose and lignin were further evaluated using the response surface method. The quadratic polynomial mathematical model of degradation rates of the cellulose and lignin in CPS by mixed fungus fermentation was established using Design Expert software v8.0.6. Under the optimal parameters for fungal fermentation of CPS straw (fungal ratio 4:6, fungal inoculum 8%, corn flour content 10%, fermentation time of 15 d), the CDR and LDR reached 13.65% and 10.73%, respectively. Collectively, the mixed fungal fermentation of CPS resulted in decreased lignin and cellulose content, better retention of nutrients, and enhanced fermentation quality. The results of this study indicate that fermentation using Trichoderma reesei and Coprinus comatus is a productive method for straw degradation, providing a theoretical basis for the development of CPS as feed.
Collapse
Affiliation(s)
- Ti Wei
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Hongfu Chen
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Dengyu Wu
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
- Taizishan Ecosystem Observatory of Carbon Neutralization, Northwest Minzu University, Lanzhou, Gansu, China
| | - Dandan Gao
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Taizishan Ecosystem Observatory of Carbon Neutralization, Northwest Minzu University, Lanzhou, Gansu, China
- Institute of Livestock and Poultry Genetic Resources Conservation and Utilization of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Yong Cai
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
- Taizishan Ecosystem Observatory of Carbon Neutralization, Northwest Minzu University, Lanzhou, Gansu, China
| | - Xin Cao
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
- Institute of Livestock and Poultry Genetic Resources Conservation and Utilization of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Hongwei Xu
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Institute of Livestock and Poultry Genetic Resources Conservation and Utilization of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Jutian Yang
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
- Institute of Livestock and Poultry Genetic Resources Conservation and Utilization of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
| | - Penghui Guo
- College of Life Sciences and Engineering, Northwest Minzu University, Lanzhou, Gansu, China
- Ecological Industry Development Research Institute of the Upper Yellow River, Northwest Minzu University, Lanzhou, Gansu, China
- Taizishan Ecosystem Observatory of Carbon Neutralization, Northwest Minzu University, Lanzhou, Gansu, China
| |
Collapse
|
3
|
Li R, Wang J, Zhao J. Solid-state fermentation of ammoniated corn straw to produce feed protein and toxicological assessment of the product. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:13895-13901. [PMID: 32036536 DOI: 10.1007/s11356-020-07981-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 02/03/2020] [Indexed: 06/10/2023]
Abstract
Solid-state fermentation (SSF) of ammoniated corn straw was used to produce feed protein, followed by a toxicological assessment of the fermentation product. Results showed that through ammonification at 35 °C for 9 days and the subsequent SSF by the two fungi Penicillium sp. and Torula allii at 30 °C for 5 days, the contents of real protein and crude protein of the corn straw reached 29.66% and 35.41%, respectively. Toxicological assessment in mice showed that there were no significant differences (P > 0.05) for micronucleated polychromatic erythrocytes (Mn-PCEs) and sperm abnormality between dose groups and the control group. Malondialdehyde (MDA) levels and activities of superoxide dismutase (T-SOD), glutathione peroxidase (GSH-Px), and catalase (CAT) also showed no significant difference (P > 0.05) between tissues (heart, liver, spleen, stomach, kidney, and brain), which indicates that the fermentation product did not induce toxic effects and is safe to use as ruminant feed.
Collapse
Affiliation(s)
- Riqiang Li
- College of Environmental & Resources Sciences, Shanxi University, Taiyuan, 030006, Shanxi Province, China.
| | - Jianxing Wang
- College of Environmental & Resources Sciences, Shanxi University, Taiyuan, 030006, Shanxi Province, China
| | - Jixin Zhao
- College of Environmental & Resources Sciences, Shanxi University, Taiyuan, 030006, Shanxi Province, China
| |
Collapse
|
4
|
Dong Z, Wang S, Zhao J, Li J, Shao T. Effects of additives on the fermentation quality, in vitro digestibility and aerobic stability of mulberry (Morus alba L.) leaves silage. ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES 2020; 33:1292-1300. [PMID: 32054226 PMCID: PMC7322647 DOI: 10.5713/ajas.19.0420] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/24/2019] [Accepted: 09/15/2019] [Indexed: 11/27/2022]
Abstract
OBJECTIVE To explore feed resources capable of replacing regular poor-quality fodder, this study was conducted to evaluate the effects of additives on the fermentation quality, in vitro digestibility and aerobic stability of mulberry leaves silage. METHODS The mulberry leaves were ensiled either untreated (control) or treated with 1×106 cfu/g fresh matter Lactobacillus plantarum (L), 1% glucose (G), 3% molasses (M), a combination of 1% glucose and Lactobacillus plantarum (L+G), and a combination of 3% molasses and Lactobacillus plantarum (L+M). The fermentation quality and chemical composition were analyzed after 7, 14, 30, and 60 d, respectively. The 60-d silages were subjected to an aerobic stability test and fermented with buffered rumen fluid to measure the digestibility. RESULTS Inoculating lactic acid bacteria (LAB) resulted in more rapid increase in lactic acid concentrations and decline in pH of mulberry leaves silage as compared control. Higher acetic acid and lower ethanol and ammonia nitrogen concentrations (p<0.05) were observed in the LAB-inoculated silages as opposed to control during ensiling. The LAB-inoculated silages contained lower water-soluble carbohydrates compared with control during the first 14 d of ensiling, and lower neutral detergent fibre (p<0.05) concentrations as compared with non-LAB inoculated silages. Adding molasses alone increased (p<0.05) the digestibility of dry matter (DM). The aerobic stability of mulberry leaves silage was increased by LAB inoculation, whereas decreased by adding glucose or molasses. CONCLUSION The LAB inoculation improved fermentation quality and aerobic stability of mulberry leaves silage, while adding glucose or molasses failed to affect the fermentation and impaired the aerobic stability. Inoculating LAB alone is recommended for mulberry leaves especially when ensiled at a relatively high DM.
Collapse
Affiliation(s)
- Zhihao Dong
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Siran Wang
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Jie Zhao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Junfeng Li
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Tao Shao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| |
Collapse
|
5
|
Gao JL, Wang P, Zhou CH, Li P, Tang HY, Zhang JB, Cai Y. Chemical composition and in vitro digestibility of corn stover during field exposure and their fermentation characteristics of silage prepared with microbial additives. ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES 2019; 32:1854-1863. [PMID: 31010973 PMCID: PMC6819684 DOI: 10.5713/ajas.18.0886] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 11/23/2018] [Accepted: 03/18/2019] [Indexed: 11/27/2022]
Abstract
Objective To effectively use corn stover resources as animal feed, we explored the chemical composition and in vitro digestibility of corn stover during field exposure and the fermentation characteristics of silage prepared with lactic acid bacteria (LAB) and cellulase. Methods Corn ears including the cobs and shucks were harvested at the ripe stage. The corn stover was exposed in the field under natural weather conditions. Silages were prepared after 0, 2, 4, 7, 15, 30, and 60 d of exposure. Corn stover was chopped into approximately 1 to 2 cm lengths and then packed into 5 liter plastic silos. The ensiling density was 550.1±20.0 g/L of fresh matter, and the silos were kept at room temperature (10°C to 25°C). Silage treatments were designed as follows: without additives (control), with LAB, with cellulase, and with LAB+ cellulase. After 45 d of fermentation, the silos were opened for chemical composition, fermentation quality and in vitro digestion analyses. Results After harvest, corn stover contained 78.19% moisture, 9.01% crude protein (CP) and 64.54% neutral detergent fiber (NDF) on a dry matter (DM) basis. During field exposure, the DM, NDF, and acid detergent fiber (ADF) contents of corn stover increased, whereas the CP and water-soluble carbohydrate contents and in vitro digestibility of the DM and CP decreased (p<0.05). Compared to the control silage, cellulase-treated silage had lower (p<0.05) NDF and ADF contents. The pH values were lower in silage treated with LAB, cellulase, or LAB+cellulase, and lactic acid contents were higher (p<0.05) than those of the control. Silage treated with cellulase or LAB+cellulase improved (p<0.05) the in vitro DM digestibility (IVDMD) compared to that of the control or LAB-treated silage. Conclusion Corn stover silage should be prepared using fresh materials since stover nutrients are lost during field exposure, and LAB and cellulase can improve silage fermentation and IVDMD.
Collapse
Affiliation(s)
- Jun Lei Gao
- College of Animal Science, Jilin University, Changchun 130062, China
| | - Peng Wang
- College of Animal Science, Jilin University, Changchun 130062, China
| | - Chang Hai Zhou
- College of Animal Science, Jilin University, Changchun 130062, China
| | - Ping Li
- School of Architecture and Civil Engineering, Changchun Sci-Tech University, Changchun 130600, China
| | - Hong Yu Tang
- College of Animal Science, Jilin University, Changchun 130062, China
| | - Jia Bao Zhang
- College of Animal Science, Jilin University, Changchun 130062, China
| | - Yimin Cai
- Japan International Research Center for Agricultural Sciences, Tsukuba 305-8686, Japan
| |
Collapse
|