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He J, Tian D, Li X, Wang X, Wang T, Wang Z, Zang H, He X, Zhang T, Yun Q, Zhang R, Jiang J, Jia S, Zhang Y. A chromosome-level genome assembly for Onobrychis viciifolia reveals gene copy number gain underlying enhanced proanthocyanidin biosynthesis. Commun Biol 2024; 7:19. [PMID: 38182881 PMCID: PMC10770414 DOI: 10.1038/s42003-023-05754-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2023] [Accepted: 12/28/2023] [Indexed: 01/07/2024] Open
Abstract
Sainfoin (Onobrychis viciifolia), which belongs to subfamily Papilionoideae of Leguminosae, is a vital perennial forage known as "holy hay" due to its high contents of crude proteins and proanthocyanidins (PAs, also called condensed tannins) that have various pharmacological properties in animal feed, such as alleviating rumen tympanic disease in ruminants. In this study, we select an autotetraploid common sainfoin (2n = 4x = 28) and report its high-quality chromosome-level genome assembly with 28 pseudochromosomes and four haplotypes (~1950.14 Mb, contig N50 = 10.91 Mb). The copy numbers of genes involved in PA biosynthesis in sainfoin are significantly greater than those in four selected Fabales species, namely, autotetraploid Medicago sativa and three other diploid species, Lotus japonicus, Medicago truncatula, and Glycine max. Furthermore, gene expansion is confirmed to be the key contributor to the increased expression of these genes and subsequent PA enhancement in sainfoin. Transcriptomic analyses reveal that the expression of genes involved in the PA biosynthesis pathway is significantly increased in the lines with high PA content compared to the lines with medium and low PA content. The sainfoin genome assembly will improve our understanding of leguminous genome evolution and biosynthesis of secondary metabolites in sainfoin.
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Affiliation(s)
- Junyi He
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Danyang Tian
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Xue Li
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Xuemeng Wang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Tingting Wang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Ziyao Wang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Hui Zang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Xiaofan He
- School of Grassland Science, Beijing Forestry University, 100083, Beijing, China
| | - Tiejun Zhang
- School of Grassland Science, Beijing Forestry University, 100083, Beijing, China
| | - Quanzheng Yun
- Department of Bioinformatics, Ori (Shandong) Gene Science and Technology Co., Ltd., Weifang, 261322, China
| | - Rengang Zhang
- Department of Bioinformatics, Ori (Shandong) Gene Science and Technology Co., Ltd., Weifang, 261322, China
| | - Jishan Jiang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China
| | - Shangang Jia
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China.
| | - Yunwei Zhang
- College of Grassland Science and Technology, China Agricultural University, 100193, Beijing, China.
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Palangi V. Identification of Ruminal Fermentation Curves of Some Legume Forages Using Particle Swarm Optimization. Animals (Basel) 2023; 13:ani13081339. [PMID: 37106901 PMCID: PMC10135319 DOI: 10.3390/ani13081339] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2023] [Revised: 04/11/2023] [Accepted: 04/12/2023] [Indexed: 04/29/2023] Open
Abstract
The modeling process has a wide range of applications in animal nutrition. The purpose of this work is to determine whether particle swarm optimization (PSO) could be used to explain the fermentation curves of some legume forages. The model suited the fermentation data with minor statistical differences (R2 > 0.98). In addition, reducing the number of iterations enhanced this method's benefits. Only Models I and II could successfully fit the fermentability data (R2 > 0.98) in the vetch and white clover fermentation curve because the negative parameters (calculated in Models III and IV) were not biologically acceptable. Model IV could only fit the alfalfa fermentation curve, which had higher R values and demonstrated the model's dependability. In conclusion, it is advised to use PSO to match the fermentation curves. By examining the fermentation curves of feed materials, animal nutritionists can obtain a broader view of what ruminants require in terms of nutrition.
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Affiliation(s)
- Valiollah Palangi
- Department of Animal Science, Faculty of Agriculture, Ege University, Bornova, Izmir 35100, Türkiye
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Potential use of cassava by-product as ruminant feed. Trop Anim Health Prod 2021; 53:108. [PMID: 33423082 DOI: 10.1007/s11250-021-02555-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Accepted: 01/05/2021] [Indexed: 10/22/2022]
Abstract
Cassava (Manihot esculenta Crantz) bagasse is the by-product from industry (BCI), generated during manufacturing of cassava flour; this material has significant amounts of carbohydrates consisting in a potential energy source for ruminants. We hypothesized that the inclusion of BCI in the diets may lead to fermentation parameters equivalent to those of conventional feedstuff such as tropical grasses or grains; therefore, we aimed to evaluate ruminal fermentation parameters of BCI in in vitro conditions. Three different substrates were prepared: 100% BCI (BCI diet), 100% tifton (Cynodon spp.) hay (CTL diet), and 50% tifton hay +50% BCI (THB diet). Ruminal fermentation parameters of these diets were evaluated in in vitro gas production assays. In a 24-h incubation, increased values for total gas production, organic matter degradability, and methane production were observed for BCId and THB as compared to CTL (p < 0.05), while neutral THB showed the highest value for neutral detergent fiber degradability (p < 0.05). Fermentation profile was evaluated in a 48-h assay: shorter lag time as well as increased gas production potential and fractional fermentation rate were observed for the BCId and THB as compared to CTL (p < 0.05). Our results suggested that by-product from cassava industry is a suitable feed for ruminant production, providing desirable in vitro ruminal fermentation performance and organic matter degradability.
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Distel RA, Arroquy JI, Lagrange S, Villalba JJ. Designing Diverse Agricultural Pastures for Improving Ruminant Production Systems. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2020. [DOI: 10.3389/fsufs.2020.596869] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
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Lagrange S, Villalba JJ. Tannin-containing legumes and forage diversity influence foraging behavior, diet digestibility, and nitrogen excretion by lambs1,2. J Anim Sci 2019; 97:3994-4009. [PMID: 31372657 PMCID: PMC6735941 DOI: 10.1093/jas/skz246] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2019] [Accepted: 07/31/2019] [Indexed: 11/14/2022] Open
Abstract
Diverse combinations of forages with different nutrient profiles and plant secondary compounds may improve intake and nutrient utilization by ruminants. We tested the influence of diverse dietary combinations of tannin- (sainfoin-Onobrichis viciifolia; birdsfoot trefoil-Lotus corniculatus) and non-tannin- (alfalfa-Medicago sativa L.) containing legumes on intake and diet digestibility in lambs. Freshly cut birdsfoot trefoil, alfalfa, and sainfoin were offered in ad libitum amounts to 42 lambs in individual pens assigned to 7 treatments (6 animals/treatment): 1) single forage species (sainfoin [SF], birdsfoot trefoil [BFT], and alfalfa [ALF]), 2) all possible 2-way choices of the 3 forage species (alfalfa-sainfoin [ALF-SF], alfalfa-birdsfoot trefoil [ALF-BFT], and sainfoin-birdsfoot trefoil [SF-BFT]), or 3) a choice of all 3 forages (alfalfa-sainfoin-birdsfoot trefoil [ALF-SF-BFT]). Dry matter intake (DMI) was greater in ALF than in BFT (P = 0.002), and DMI in SF tended to be greater than in BFT (P = 0.053). However, when alfalfa was offered in a choice with either of the tannin-containing legumes (ALF-SF; ALF-BFT), DMI did not differ from ALF, whereas DMI in SF-BFT did not differ from SF (P > 0.10). When lambs were allowed to choose between 2 or 3 legume species, DMI was greater (36.6 vs. 33.2 g/kg BW; P = 0.038) or tended to be greater (37.4 vs. 33.2 g/kg BW; P = 0.067) than when lambs were fed single species, respectively. Intake did not differ between 2- or 3-way choice treatments (P = 0.723). Lambs preferred alfalfa over the tannin-containing legumes in a 70:30 ratio for 2-way choices, and alfalfa > sainfoin > birdsfoot trefoil in a 53:33:14 ratio for the 3-way choice. In vivo digestibility (DMD) was SF > BFT (72.0% vs. 67.7%; P = 0.012) and DMD in BFT tended to be greater than in ALF (64.6%; P = 0.061). Nevertheless, when alfalfa was offered in a choice with either sainfoin or birdsfoot trefoil (ALF-SF; ALF-BFT), DMD was greater than ALF (P < 0.001 and P = 0.007, respectively), suggesting positive associative effects. The SF treatment had lower blood urea nitrogen and greater fecal N/N intake ratios than the ALF, BFT, or ALF-BFT treatments (P < 0.05), implying a shift in the site of N excretion from urine to feces. In conclusion, offering diverse combinations of legumes to sheep enhanced intake and diet digestibility relative to feeding single species, while allowing for the incorporation of beneficial bioactive compounds like condensed tannins into the diet.
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Affiliation(s)
- Sebastian Lagrange
- Department of Wildland Resources, Quinney College of Natural Resources, Utah State University, Logan, UT
- Estación Experimental Agropecuaria Bordenave, Instituto Nacional de Tecnología Agropecuaria. Bordenave, Buenos Aires, Argentina
| | - Juan J Villalba
- Department of Wildland Resources, Quinney College of Natural Resources, Utah State University, Logan, UT
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