Aquaculture Reports最新文献

{"title":"Aeration remodels the gut bacterial community and co-metabolic profile in sea cucumber (Apostichopus japonicus)","authors":"Changkun Dong ,&nbsp;Tengyu Xing ,&nbsp;Dongsheng Chen ,&nbsp;Yanmin Zhang ,&nbsp;Anzheng Liu ,&nbsp;Yuchen Chen ,&nbsp;Jun Ding ,&nbsp;Luo Wang","doi":"10.1016/j.aqrep.2025.102684","DOIUrl":"10.1016/j.aqrep.2025.102684","url":null,"abstract":"<div><div>Aeration is a crucial method for disrupting water stratification and enhancing the living conditions of the cultured species in the process of pond aquaculture. The mechanism by which sea cucumber (<em>Apostichopus japonicus</em>) gut microbiota and metabolism in response to aeration are poorly understood. In the present study, we exposed the <em>A. japonicus</em> to aerated ponds and non-aerated ponds for 60 days. To address the aeration effect on gut microbiota and metabolism, the gut bacteria and metabolites of <em>A. japonicus</em> was assessed using the 16S rRNA sequencing and metabolomics technology. The results showed that the diversity and abundance of the gut microbiota of <em>A. japonicus</em> increased significantly after aeration, and the aeration treatment significantly changed the structural composition of the gut microbiota of <em>A. japonicus</em>. Among them, the relative abundance of <em>Vibrio</em> decreased by 12.86 %, and the relative abundance of <em>Photobacterium</em> and <em>Ruegeria</em> both increased by more than 500 %. A total of 102 differential metabolites were screened by metabolomics, of which 70 metabolites were significantly up-regulated and 32 metabolites were significantly down-regulated. Further metabolic pathway enrichment analyses revealed that aeration affects arachidonic acid metabolism, linoleic acid metabolism, and inflammatory mediator regulation of TRP channels through pathways that promote the accumulation of diglyceride and phosphatidylcholine. Through the Pearson correlation analysis found that <em>Photobacterium</em>, <em>Ruegeria</em> are positively correlated with anti-inflammatory substances such as phosphatidylcholine, l - pyroglutamic acid, Acetyl - dl – carnitine and betaine, <em>Vibrio</em> and <em>Tepidibacter</em> showed a significant negative correlation with them. The results suggested that aeration improves the physiological state of the organism by affecting the gut microbial composition and host metabolic state of <em>A. japonicus</em> indirectly. This study provides a theoretical basis for the healthy and enhanced cultivation of <em>A. japonicus.</em></div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102684"},"PeriodicalIF":3.2,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143454723","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effects of berberine combined with Pennisetum sinese Roxb meal on growth, hepatic lipid metabolism, and intestinal health of grass carp, Ctenopharyngodon idella","authors":"Jingjing Tian ,&nbsp;Binbin Wang ,&nbsp;Mengmeng Ji,&nbsp;Wangbao Gong,&nbsp;Hongyan Li,&nbsp;Yun Xia,&nbsp;Kai Zhang,&nbsp;Zhifei Li,&nbsp;Wenping Xie,&nbsp;Guangjun Wang,&nbsp;Jun Xie","doi":"10.1016/j.aqrep.2025.102702","DOIUrl":"10.1016/j.aqrep.2025.102702","url":null,"abstract":"<div><div>Intestinal inflammation and hepatic fat accumulation syndrome is a major issue in farmed fish. In this study, grass carp (20.3 ± 0.1 g) were fed for 8 weeks with six feeds containing different <em>Pennisetum sinese</em> Roxb meal (PSRM) levels (0, 5, 10 %) and 0 or 0.1 % berberine (BBR). Growth remained unaffected by BBR and PSRM. PSRM reduced the CF, HI, and VSI, whereas BBR had no such effect or interaction. PSRM (not BBR) suppressed the activities of serum AST and ALT, as well as the contents of LDL - c, T - CHO, and TG (<em>P</em> &lt; 0.05). However, BBR only interacted with the effects of PSRM on the AST and ALT activities (<em>P</em> &lt; 0.01). BBR and PSRM decreased hepatic lipid droplet deposition and TG/T - CHO contents (<em>P</em> &lt; 0.01), without interaction. Transcriptionally, both BBR and PSRM suppressed the lipogenic genes PPARγ, ACC, and SCD (<em>P</em> &lt; 0.01) and upregulated the lipolytic genes PPARα, ATGL, and APOE (<em>P</em> &lt; 0.01), mostly without interaction. Intestinal immunohistochemistry revealed TNF - α below intestinal villi and IL - 6 on the upper side of villi and in lamina propria, both reduced in fish fed PSRM - and BBR - supplemented diets (<em>P</em> &lt; 0.05). BBR and PSRM suppressed pro - inflammatory (TNF - α, IL - 6, IL - 8) and ER stress genes (GPR78, ATF6, IRE - 1α, PERK), and promoted anti - inflammatory (TGF - β1, IL - 4/13 A), with interaction on TNF - α, IL - 8, GRP78, PERK, TGF - β1 (<em>P</em> &lt; 0.05). BBR and PSRM triggered the FXR signaling pathway in liver and intestine, with BBR interacting with PSRM on most genes. Overall, BBR didn't disrupt PSRM-induced benefits on body morphology, had no superimposed effect on intestinal health but a synergistic effect on fat reduction.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102702"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143454821","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular characterization and functional analysis of CYP315 A1 in ovarian development in Macrobrachium nipponense","authors":"Sufei Jiang ,&nbsp;Wenyi Zhang ,&nbsp;Jufeng Jiang ,&nbsp;Mengying Zhang ,&nbsp;Jisheng Wang ,&nbsp;Yiwei Xiong ,&nbsp;Hui Qiao ,&nbsp;Hongtuo Fu","doi":"10.1016/j.aqrep.2025.102700","DOIUrl":"10.1016/j.aqrep.2025.102700","url":null,"abstract":"<div><div>The CYP315A1 gene in <em>Macrobrachium nipponense</em> (named Mn-CYP315A1) was characterized from the “Insect hormone biosynthesis” signaling pathway in the hepatopancreas transcriptomes. The total cDNA length of Mn-CYP315A1 was 1582 bp, encoding 569 amino acids. It contained typical P450conserved domains. qPCR analysis indicated that this gene was highly expressed in the ovaries of adult females (<em>P</em> &lt; 0.05), moderately expressed in their heart (<em>P</em> &lt; 0.05), and minimally expressed in other tissues <em>(P</em> &lt; 0.05). The expression of Mn-CYP315A1 was relatively stable during embryonic stages (CS to ZS) and from hatching to metamorphosis (L1 to L10) (<em>P</em> &gt; 0.05), and increased significantly on the 10th day after metamorphosis (<em>P</em> &lt; 0.05). Expression in mature ovaries increased sharply (<em>P</em> &lt; 0.01), while it was relatively low in other stages (<em>P</em> &lt; 0.05). <em>In situ</em> hybridization results showed that it was mainly expressed in the cytoplasmic membrane and nucleus of oocytes, and the signal was strongest during the mature stage (Ⅳ stage) and weakest during the non-development stage. The RNA interference results showed that the GSI and the cumulative proportion of ovary stage Ⅲ in the experimental group were significantly lower than those in the ds-GFP group after injection with CYP315A1 dsRNA (<em>P</em> &lt; 0.05). The cumulative molting frequency of the ds-GFP group was about 2.5 times that of the ds-CYP315 A1 group. These results suggest that Mn-CYP315A1 has a dual role in promoting ovarian development and molting in female <em>M. nipponense</em>.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102700"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143444498","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of stocking density on oxidative stress, digestive enzyme activity, ATPase function, and transcriptomic changes in juvenile Crimson snapper (Lutjanus erythropterus) during long-hour transportation","authors":"Jiaqi Su ,&nbsp;Yu Guo ,&nbsp;Jiayang Li ,&nbsp;Karsoon Tan ,&nbsp;Chuanxin Qin","doi":"10.1016/j.aqrep.2025.102699","DOIUrl":"10.1016/j.aqrep.2025.102699","url":null,"abstract":"<div><div>Fish farms are often situated far from hatcheries, making the transport of fish larvae or juveniles from hatcheries to rearing farms a critical process. While optimal stocking densities for the transporting some marine species are established, there is limited information on the transportation of hatchery-produced juvenile Crimson snapper (<em>Lutjanus erythropterus</em>)<em>.</em> This study aimed to assess how stocking density affects antioxidative stress, digestive enzymes, ATPases, and the transcriptome of <em>Lutjanus erythropterus</em> during long-hour transportation. The results revealed that water quality deteriorated as stocking density of <em>Lutjanus erythropterus</em> increased. At low to moderate stocking densities (20–60 g/L), <em>L. erythropterus</em> adapted environmental stress by boosting total antioxidant capacity, α-amylase activity, and ATPases activities. However, at stocking densities ≥ 80 g/L, significant oxidative stress occurred, with inhibition of antioxidant enzymes, α-amylase activity, and ATPases activities. Transciptomic analysis supported these biochemical findings, with KEGG enrichment revealing that differentially expressed genes were linked to anti-inflammatory and metabolic pathways, especially at high densities. In conclusion, 60 g/L is the optimum stocking density for <em>L. erythropterus</em> juveniles during road transport, while 80 g/L being a feasible but stressful alternative. These findings provide valuable insights for enhancing transportation practices to reduce stress on <em>L. erythropterus</em> juveniles in a cost-effective manner.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102699"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143444499","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effect of dietary quercetin supplementation on high-starch diet-induced growth impairment, metabolic dysregulation, and oxidative stress in largemouth bass (Micropterus salmoides)","authors":"Yexin Wei ,&nbsp;Xin Liu ,&nbsp;Jia Huang ,&nbsp;Haijie Chen ,&nbsp;Yuanfa He ,&nbsp;Yongjun Chen ,&nbsp;Shimei Lin","doi":"10.1016/j.aqrep.2025.102704","DOIUrl":"10.1016/j.aqrep.2025.102704","url":null,"abstract":"<div><div>High-starch diets disrupt glucose and lipid metabolism in fish, which in turn leads to impaired liver function and growth. Although quercetin has been shown to reduce blood glucose and cholesterol levels in mammals, its role in aquaculture fish remains poorly understood. To address this knowledge gap, five experimental diets were formulated: LS (8 % starch without quercetin), HS (16 % starch without quercetin), HSQ₂₀₀ (16 % starch with 0.02 % quercetin), HSQ₄₀₀ (16 % starch with 0.04 % quercetin), and HSQ₈₀₀ (16 % starch with 0.08 % quercetin). Juvenile largemouth bass (initial weight: 10.02 ± 0.05 g) were fed respective diets for 10 weeks. Compared with the LS group, the HS group exhibited significant growth inhibition and liver damage. Notably, quercetin supplementation significantly improved weight gain (WG), specific growth rate (SGR), and protein efficiency ratios (PER); reduced blood glucose, serum triglycerides (TG), total cholesterol (TC), low-density lipoprotein cholesterol (LDL-C), and liver enzyme activities (AST and ALT). Mechanically, quercetin decreased liver glycogen levels by upregulating genes related to glucose metabolism (<em>g6pc1a</em>, <em>pfkla</em>, and <em>slc2a1b</em>). It also reduced liver TG, TC, and lipid content by downregulating lipid metabolism-related genes (<em>fasn</em>, <em>acaca</em>, <em>cd36</em>, and <em>fabp4a</em>). Furthermore, quercetin lowered reactive oxygen species (ROS) levels by upregulating antioxidant genes (<em>cat</em>, <em>gpx7</em>, <em>sod1</em>), enhancing antioxidant enzyme activity, and alleviating oxidative stress. These findings demonstrate that, quercetin protects against high-starch-induced liver injury through multiple pathways involving oxidative stress and metabolism. For optimal growth performance and hepatoprotection, dietary supplementation with 400 mg/kg quercetin is recommended in a high-starch diet for largemouth bass.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102704"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143454721","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A novel strategy to optimize resources to boost production in rice-fish coculture at Ziro Valley, India","authors":"Ayan Samaddar ,&nbsp;Dani Kacha ,&nbsp;Anilava Kaviraj ,&nbsp;Sarah Freed ,&nbsp;Arun Panemangalore Padiyar ,&nbsp;Sambhu Das ,&nbsp;Subrata Saha","doi":"10.1016/j.aqrep.2025.102679","DOIUrl":"10.1016/j.aqrep.2025.102679","url":null,"abstract":"<div><div>The Apatani community in Arunachal Pradesh, India has long practiced rice-fish coculture, integrating rice cultivation with fish farming to enhance food security and promote environmental sustainability. This traditional method utilizes the region’s wet rice terraces, allowing for the simultaneous production of rice and fish, contributing to efficient land and water resource utilization. Despite the organic nature of this practice, challenges such as suboptimal input distribution, inappropriate combinations of rice and fish species, and limited access to training have hindered productivity. The overall average yields of 1389 kg/ha for rice and 209 kg/ha for fish, indicating room for improvement. This study focused on optimizing resource utilization and fund allocation among Apatani farmers in Ziro Valley to address these issues. Data were collected from a random sample of 200 farmers across the valley. Using Cobb-Douglas production functions, researchers estimated rice and fish yields through regression models. Subsequently, a non-linear constrained optimization problem based on the Nash-bargaining framework was solved to assess the effects of optimization on fund allocation for various inputs. The findings revealed that rice and fish yields could potentially exceed 2000 kg/ha and 300 kg/ha, respectively, with proper resource management. Critical factors identified for enhancing productivity included using mixed manure and stocking fingerlings. Moreover, improving farmers’ technical knowledge and skills through institutional support and policy interventions was deemed vital for establishing rice-fish coculture as a sustainable livelihood in Ziro Valley. In conclusion, while the Apatani community’s traditional rice-fish coculture system offers a foundation for sustainable agriculture, targeted optimization of resource utilization, combined with enhanced training and institutional support, is essential to realize its full potential in improving productivity and ensuring long-term sustainability.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102679"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143454822","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effects of multi-wavelength ultraviolet radiation on the inactivation and reactivation of Escherichia coli in recirculating water system","authors":"Weixiao Zhang ,&nbsp;Wenyu Zhao ,&nbsp;Yuxin Sun ,&nbsp;Yan Sun ,&nbsp;Baolong Wang ,&nbsp;Mingyuan Liu ,&nbsp;Zhujun Qiu ,&nbsp;Yuqing Wang ,&nbsp;Ziyi Sun ,&nbsp;Peifen Hu ,&nbsp;Qian Zhang ,&nbsp;Ying Liu","doi":"10.1016/j.aqrep.2025.102688","DOIUrl":"10.1016/j.aqrep.2025.102688","url":null,"abstract":"<div><div>Ultraviolet (UV) disinfection plays a crucial role in controlling large-scale outbreaks disease in aquaculture. As a safe and efficient new light source, ultraviolet light-emitting diode (UV-LED) can combine specific wavelengths. The effects of the combination of UVC-LED (275 nm) and UVA-LED (365 nm) on the elimination and reactivation of <em>Escherichia coli</em> (<em>E. coli</em>) were investigated in this study. The results showed that UVC-LED could effectively inactivate <em>E. coli</em>, while UVA-LED had a limited effect <em>E. coli</em> removal. The inactivation of bacteria increased with the UVC-LED dose. It was found that UVA-LED pre-treatment improved the removal of <em>E. coli</em> in the combined treatment. The combination of UVA-LED followed by UVC-LED irradiation exhibited a synergistic effect. UVA irradiation at 3240 mJ/cm² followed by 750 mJ/cm² UVC irradiation resulted in a 3.18 log inactivation, which was about 2 log higher than that achieved by 750 mJ/cm² UVC irradiation alone. Following disinfection, <em>E. coli</em> exhibited reactivation, with the dark repair rate exceeding that of photoreactivation. The bacterial reactivation rate increased with duration after UVC irradiation. High dose sequential UVA-UVC irradiation can effectively inhibit bacterial reactivation, delaying the reactivation. After 3240 mJ/cm² UVA followed by 750 mJ/cm² UVC irradiation, the dark repair rate of <em>E. coli</em> reached a minimum of 193.81 ± 5.85 % at 72 h. This study revealed the effective inactivation of bacteria through the combination of UVA-LED and UVC-LED, clarifying the mechanisms and influencing factors associated with inactivation and reactivation during UV synergistic disinfection. Simulate the actual water treatment process more realistically. And the bacterial reactivation can be effectively inhibited by high-dose UV irradiation and avoidance of visible light after irradiation. Our findings provide valuable insights for the design and operation of UV disinfection in recirculating aquaculture, it also clearly presenting the challenges in the actual water treatment process.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102688"},"PeriodicalIF":3.2,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143444314","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Detection of favorable QTL alleles and candidate genes for high pH tolerance in Chinese shrimp Fenneropenaeus chinensis via association and linkage maps","authors":"Zhaoxia Li ,&nbsp;Jinye Wang ,&nbsp;Chuanshi Jia ,&nbsp;Chenhui Guan ,&nbsp;Yuying He","doi":"10.1016/j.aqrep.2025.102676","DOIUrl":"10.1016/j.aqrep.2025.102676","url":null,"abstract":"<div><div>High pH is a significant form of abiotic stress in <em>Fenneropenaeus chinensis</em>, affecting multiple cellular structures and metabolic pathways. Utilizing a combination of genome-wide association study (GWAS), quantitative trait locus analysis (QTL), and selective sweep analysis, we pinpointed 19 QTLs that contribute to high pH tolerance of <em>F. chinensis</em>. By integrating with transcriptome data and functional annotations, we further verified four candidate genes: <em>TCPG</em>, <em>TMEM9</em>, <em>PSA7</em>, and <em>ZNF773</em>. Notably, we also detected a candidate gene, <em>Octbeta1R</em>, in a highly differentiated regions on Chr34 <em>(</em><span><math><msub><mrow><mi>F</mi></mrow><mrow><mi>st</mi></mrow></msub></math></span> = 0.086). This region exhibited significant genetic divergence between the high pH sensitive and tolerant groups, overlapping with three major QTLs. The expression levels of these candidate genes differed significantly between the two groups, further supporting their involvement in pH tolerance. In addition, a GWAS was conducted using 631,266 high-quality single nucleotide polymorphisms (SNPs). The analysis identified 136 loci that were significantly associated with the high pH tolerance. Five candidate genes, namely <em>HMCN1</em>, <em>NUDFAF7</em>, <em>SCARB1</em>, <em>NUBP2</em>, and <em>NAT10</em> were annotated based on their expression patterns and association with selective sweep regions. Haploblock analysis of <em>ANKL2</em> gene revealed three functional mutations and significant differences in survival time after high pH stress were observed between haplotypes. The findings provide valuable insights into the genetic mechanisms underlying high pH tolerance in Chinese shrimp. These discoveries pave the way for the development of breeding strategies that can enhance the resilience of this important aquaculture species against environmental stressors such as high pH levels. The identification of candidate genes and QTLs also offers potential targets for molecular genetic investigations and breeding efforts aimed at improving the adaptability of <em>F. chinensis</em> to changing environmental conditions.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102676"},"PeriodicalIF":3.2,"publicationDate":"2025-02-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143437350","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effect of land-based suspension conditions on the culture of the Rhodophyta Bangia fuscopurpurea","authors":"Xuli Jia ,&nbsp;Tao Liu","doi":"10.1016/j.aqrep.2025.102678","DOIUrl":"10.1016/j.aqrep.2025.102678","url":null,"abstract":"<div><div>Land-based suspension culture helps solving the problems faced by traditional marine-raft culture, such as uncontrollable environmental factors, limited breeding cycle, frequent disease and pest outbreaks, and high levels of impurities in cultured products. <em>Bangia fuscopurpurea</em> has a distinctive multi-row filamentous cell structure, which makes it ideal for suspension culture research. This study investigated the effects of different environmental factors —such as initial algal density, temperature, photoperiod, light intensity, nitrogen source and nitrogen-to-phosphorus ratio, ferric citrate, and salinity— on the growth of suspension-cultured <em>B</em>. <em>fuscopurpurea</em> for the first time. We also evaluated the nutritional content under different aquaculture modes and determined the optimum approach for removing epiphytic algae. Relative daily growth rates were significantly affected by temperature and N concentration, with the highest value (15.85 ± 0.74 % d⁻¹) observed under conditions of 18°C, 12 L:12D photoperiod, 100 μmol m⁻² s⁻¹ light intensity, and N/P ratio 16:1 with NO₃⁻–N. The breeding cycle was shortened to 6–9 days from 10–15 days typical of traditional marine-raft culture. Protein and crude fat content were significantly influenced by N concentration and temperature, respectively, reaching 38.18 ± 0.08 % and 5.23 ± 0.04 %. Thirteen types of previously unreported trace fatty acids were identified, and the n-7 unsaturated fatty acid content increased with cultivation time progressed. Our results highlight the advantages of suspension culture, the suspension culture will contribute to the development of the macroalgae industry by encouraging the development of new breeding spaces centered around land-based aquaculture facilities and offering a mode for using airlift photobioreactors to produce safe food.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102678"},"PeriodicalIF":3.2,"publicationDate":"2025-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143427749","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Development and evaluation of a haplotype reference panel for low-coverage whole genome sequencing genotype imputation in turbot (Scophthalmus maximus)","authors":"Junwen Cao ,&nbsp;Zhihui Huang ,&nbsp;Aijun Ma ,&nbsp;Yuhang Jiang ,&nbsp;Hao Zhang ,&nbsp;Rongchao Zhang ,&nbsp;Xinan Wang ,&nbsp;Zhifeng Liu ,&nbsp;Rongjing Xu","doi":"10.1016/j.aqrep.2025.102695","DOIUrl":"10.1016/j.aqrep.2025.102695","url":null,"abstract":"<div><div>As a core molecular breeding tool, whole genome sequencing (WGS) can improve the speed of selection and breeding of superior variety and promote the progress of biotechnology-based breeding. However, the high cost of WGS limits its wide application for most aquaculture species. Low-coverage whole genome sequencing is a cost-effective alternative to genotype imputation to obtain a high density of genome-wide SNPs and ultimately Genomic selection (GS) and Genome-wide Association Studies (GWAS). In this study, we constructed the first haplotype reference panel for turbot (<em>Scophthalmus maximus</em>), which is an economically important marine farmed fish in China. We performed WGS of fish from major turbot aquaculture areas. We used 183 fish from which six populations as the reference group and 30 individual turbots from a seventh population as the validation group. In total, more than 239 million single nucleotide polymorphisms (SNPs) were identified in the reference group, and 4092,338 of them were screened for the construction of the haplotype reference panel. The reference panels were evaluated based on several factors that affect the accuracy of reference panel imputation. Twenty-two chromosomes had imputation accuracies ranging from 0.96 to 0.99, and there were no significant differences among them (p &gt; 0.05). As the sequencing depth increased, the imputation accuracy increased and stabilized at 0.1 × , ultimately reaching a imputation accuracy of 0.96. As the minor allele frequency (MAF) or genotype probability (GP) increased, the imputation accuracy increased accordingly and eventually stabilized. The results indicated that the depth of coverage could range from 0.1 × to 1.0 × and that the imputation accuracies were all as high as 0.96, which would result in high-quality sequencing data. In conclusion, we constructed a reference panel of turbot haplotypes and determined its depth of coverage for low-coverage whole genome sequencing. This is a cost-effective alternative to whole genome sequencing to provide new ideas for fish breeding.</div></div>","PeriodicalId":8103,"journal":{"name":"Aquaculture Reports","volume":"41 ","pages":"Article 102695"},"PeriodicalIF":3.2,"publicationDate":"2025-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143427751","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}