Enhancing the authenticity of animal by-products: harmonization of DNA extraction methods from novel ingredients DOI Creative Commons
Andreia Filipa-Silva,

Raquel Castro,

Mariana Rebelo

и другие.

Frontiers in Chemistry, Год журнала: 2024, Номер 12

Опубликована: Фев. 20, 2024

Introduction: The increasing global pressure to explore alternative protein sources derived from animal by-products has opened-up opportunities, but it also created the need assess their compliance with labelling statements, ensure consumer’s trust in composition of both feed and food products. Assessing authenticity highly processed by-products, particularly within rapidly expanding Halal market, presents a significant challenge due lack robust standardized methodologies. However, success DNA based system is dependent on extracted quantity, quality, purity ratios heterogeneous matrices. Material methods: In this work, nine extraction methods were tested selected high-value interest for industry: meals poultry meat, blood feather, hydrolysates swine meat bone, fish, black soldier fly. proposed are developed specifically target swine-specific mitochondrial region, as case study. Results discussion: Both conventional CTAB method commercial kits, Invisorb ® Spin Tissue Mini NucleoSpin™ Food, demonstrated superior efficiency quality ratios. Nevertheless, kits enabled faster detection comparison methods. absence was successfully validated confirmed all that did not contain beforehand, demonstrating market requirements.

Язык: Английский

What is the “modified” CTAB protocol? Characterizing modifications to the CTAB DNA extraction protocol DOI Creative Commons
John J. Schenk, L. Ellie Becklund, Steven Carey

и другие.

Applications in Plant Sciences, Год журнала: 2023, Номер 11(3)

Опубликована: Май 1, 2023

Cetyltrimethylammonium bromide (CTAB)-based methods are widely used to isolate DNA from plant tissues, but the unique chemical composition of secondary metabolites among species has necessitated optimization. Research articles often cite a "modified" CTAB protocol without explicitly stating how had been altered, creating non-reproducible studies. Furthermore, various modifications that have applied not rigorously reviewed and doing so could reveal optimization strategies across study systems. We surveyed literature for modified protocols isolation DNA. found every stage modified, we summarized those provide recommendations extraction Future genomic studies will rely on optimized protocols. Our review used, as well here, better standardize extractions, allowing repeatable transparent

Язык: Английский

Процитировано

58
Chromosome number variation and phylogenetic divergence of East Asian Cirsium sect. Onotrophe subsect. Nipponocirsium (Compositae), with a new species from Taiwan DOI Creative Commons
Chih-Yi Chang, Pei‐Chun Liao, Hsy‐Yu Tzeng

и другие.

Botanical studies, Год журнала: 2025, Номер 66(1)

Опубликована: Фев. 14, 2025

Abstract Background This study explored chromosome number variation, phylogenetic divergence, and mechanisms underlying speciation in East Asian thistle Cirsium Mill. sect. Onotrophe (Cass.) DC. subsect. Nipponocirsium Kitam. (Compositae). The focused on the newly identified species from Taiwan: pengii Y.H. Tseng, P.C. Liao & Chih Y. Chang. Utilizing phylotranscriptomic data to reconstruct evolutionary relationships between Taiwanese Japanese taxa of as well their divergence times chromosomal characteristics. Additionally, number, morphology, pollen morphology unknown taxon are compared with other known Taiwan. Results Phylotranscriptomic analysis reveals a division within into clades. In clade, C. is basal, while tatakaense remains monophyletic despite higher genetic diversity. prevalent this subsection tetraploid (2 n = 4 x 68), common taxa, members have 2 64. Notably, has diploid 32), indicating descending dysploidy followed by polyploidization polyploidization, driven glaciations, likely shaped evolution . Divergence time estimates suggest separation clades around 0.74 million years ago (Myr) during glacial periods. diverged 0.47 Myr, kawakamii 0.35 Myr. These evolved separate refugia, distinct boundaries confirmed through delimitation analysis, karyotype, comparisons. Conclusions findings enhance our understanding underscore importance integrating transcriptomic studies. provides comprehensive framework for further investigations diversity adaptive ecologically vital group.

Язык: Английский

Процитировано

1
Optimizing the lysis step in CTAB DNA extractions of silica‐dried and herbarium leaf tissues DOI Creative Commons
Steven Carey, L. Ellie Becklund, Paige P. Fabre

и другие.

Applications in Plant Sciences, Год журнала: 2023, Номер 11(3)

Опубликована: Май 1, 2023

Abstract Premise The use of cetyltrimethylammonium bromide (CTAB) is an effective and inexpensive method extracting DNA from plants. CTAB protocol frequently modified to optimize extractions, but experimental approaches rarely perturb a single variable at time systematically infer their effect on quantity quality. Methods Results We investigated how chemical additives, incubation temperature, lysis duration affected Altering those parameters influenced concentrations fragment lengths, only extractant purity was significantly affected. plus polyvinylpyrrolidone buffers produced the highest quality quantity. Extractions silica gel–preserved tissues had higher yield, longer fragments, purer extractants compared herbarium‐preserved tissues. Conclusions recommend extractions that include shorter cooler step, which results in hotter while preventing fragmentation reducing time.

Язык: Английский

Процитировано

16
Effects of low-temperature stress on serum biochemical indicators, intestinal microbiome, and transcriptome of juvenile golden pompano (Trachinotus ovatus) DOI
Rongxin Li, Eric Amenyogbe, Yi Lu

и другие.

Aquaculture International, Год журнала: 2024, Номер 32(5), С. 5551 - 5578

Опубликована: Фев. 20, 2024

Язык: Английский

Процитировано

4
Comparative diversification analyses of Hydrangeaceae and Loasaceae reveal complex evolutionary history as species disperse out of Mesoamerica DOI Creative Commons
John J. Schenk, Sarah Henaut-Jacobs,

Larry Hufford

и другие.

American Journal of Botany, Год журнала: 2025, Номер unknown

Опубликована: Янв. 11, 2025

The movement of lineages into novel areas can promote ecological opportunity and adaptive radiation, leading to significant species diversity. Not all studies, however, have identified support for associated with intercontinental colonizations. To gain key insights the drivers opportunity, we tested whether dispersals resulted in using Hydrangeaceae-Loasaceae clade, which has numerous centers diversity across globe. A time-calibrated phylogeny was reconstructed from four molecular markers. We bursts speciation rates followed by a decrease as expected phylogenetic patterns under an model. Ancestral ranges were estimated historical biogeographic analyses examine relationships ancestral distributions habitats extinction rates. Hydrangeaceae Loasaceae originated arid Mesoamerica, then dispersed South America, Eurasia, eastern North America. Six clades experienced increased diversification rates, but those increases not transitions new continental areas. Mentzelia section Bartonia only clade that exhibited burst decrease. Both families environments multiple mesic tropical environments, higher speciation-to-extinction ratio than western Nearctic. Dispersal between continents did trigger rate shifts Hydrangeaceae. Instead, occurred regions inhabited intrafamilial relatives likely driven climate change Miocene, where drier microhabitats diversified newly created habitats.

Язык: Английский

Процитировано

0
Recent Advancements and Emerging Techniques in Nucleic Acid Isolation, Amplification, and Detection from Diverse Complex Matrices of Human Interest DOI
Shashini De Silva, Seong-Soo Lee, Michael J. Dugan

и другие.

TrAC Trends in Analytical Chemistry, Год журнала: 2025, Номер unknown, С. 118172 - 118172

Опубликована: Янв. 1, 2025

Язык: Английский

Процитировано

0
Optimizing a modified cetyltrimethylammonium bromide protocol for fungal DNA extraction: Insights from multilocus gene amplification DOI Creative Commons
Gulam Jeelani Dar,

Ruqeya Nazir,

Shakil A. Wani

и другие.

Open Life Sciences, Год журнала: 2025, Номер 20(1)

Опубликована: Янв. 1, 2025

Abstract Genomic DNA (gDNA) extraction is an important step in many molecular studies of fungal biology, and it necessary to evaluate the efficiency, cost-effectiveness, efficacy different methods ensure successful amplification target gene minimize deoxyribonucleic acid (DNA) degradation. The modified cetyltrimethylammonium bromide (CTAB) method was found be effective releasing high weight gDNA with minimal protein contamination. Based on anticipated yield quality, time, cost effectiveness, amplification, waste management, our findings serve as a guide for selecting techniques from species. This study presents CTAB extracting variety species including Aspergillus , Penicillium Alternaria Dothiorella, Fusarium . Comparison three cell crushing reveals similar yields, demonstrating method’s effectiveness. Furthermore, cost-effective safe, eliminating need grinding liquid nitrogen or bead beating. has potential use nucleic-based disease diagnosis such fish diseases, plant pathogens, fruit rot associated human diseases we were PCR amplifying several loci varied pathogens.

Язык: Английский

Процитировано

0
Leaf metabolomic traits decipher the invasiveness of Alternanthera philoxeroides in urban wetlands DOI
Xiaolong Huang, J.‐M. Yang, Xue Yang

и другие.

The Science of The Total Environment, Год журнала: 2025, Номер 968, С. 178888 - 178888

Опубликована: Фев. 22, 2025

Язык: Английский

Процитировано

0
Genetic diversity assessment of Chlorella sp. strains collected from Southern Vietnam DOI
Tam Minh Phan,

Biet V. Huynh

Deleted Journal, Год журнала: 2025, Номер unknown, С. 100052 - 100052

Опубликована: Фев. 1, 2025

Язык: Английский

Процитировано

0
Improved Isolation of Ultra-High-Molecular-Weight Genomic DNA Suitable for Third-Generation Sequencing DOI Creative Commons

Ayşe Öykü Ova,

Enrique Joffré, Reza Zandi Shafagh

и другие.

Microorganisms, Год журнала: 2025, Номер 13(3), С. 534 - 534

Опубликована: Фев. 27, 2025

Although a variety of protocols to isolate high-molecular-weight genomic DNA exist, the isolation and preservation ultra-high-molecular-weight sufficient quality length for error-free third-generation sequencing remains challenging. Inspired by in agarose plugs suitable be separated pulsed-field gel electrophoresis, we report construction an incubation chamber isolation. The is flanked semi-permeable polycarbonate membranes variable pore size selective diffusion compounds components, which allows efficient cell lysis subsequent without shearing. designed experimental approach simple, but effective isolating high-quality ultra-long that Oxford Nanopore Technology from challenging bacterial samples. We envisage using chamber, or variations thereof, will facilitate regular megabasepair-long fragments, with multitude applications microbiology, immunology, oncology, paleontology forensic science.

Язык: Английский

Процитировано

0