#metatranscriptomics

[prateekcmi]

The Future of Personalized Medicine with Microbiome Sequencing Service

The human body is home to trillions of microorganisms, most of which reside in the gastrointestinal tract. Collectively known as the human microbiome, these microbes play an important role in our health and well-being. However, for a long time our understanding of the microbiome was limited due to technological constraints in identifying and characterizing the microbes that inhabit our body. Advancements in DNA sequencing technologies over the past decade have helped shed light on the diversity and dynamics of our microbiome. Next-generation sequencing (NGS) approaches are now allowing researchers to gain deeper insights into the microbial communities that both shape and are shaped by their human host.

Get More Insights on Microbiome Sequencing Service   https://www.patreon.com/posts/human-microbiome-129587000  

[biomededgene]

Metatranscriptomics: An Introduction

In the world of microbial research, understanding gene expression is just as important as identifying which organisms are present in a given environment. While genomics has revolutionized our ability to sequence microbial DNA, metatranscriptomics takes us a step further by analyzing RNA to understand what genes are actively being expressed at any given moment. This shift from DNA to RNA allows scientists to uncover the dynamic, real-time activities of microbial communities. But what exactly is metatranscriptomics, and why is it so important? Let’s take a closer look.

In conclusion, metatranscriptomics is a cutting-edge technique that provides a dynamic view of microbial gene expression, revealing how these microorganisms are actively shaping ecosystems, human health, and industry. As research progresses, we can expect this technology to drive new innovations in science, medicine, and beyond, opening doors to a deeper understanding of the invisible forces that influence life on Earth.

To know more, contact us at: https://edgenebiomed.com/

[transgenderer]

Viroids are small single-stranded, circular RNAs that are infectious pathogens.[1][2] Unlike viruses, they have no protein coating. All known viroids are inhabitants of angiosperms (flowering plants),[3] and most cause diseases, whose respective economic importance to humans varies widely.[4] A recent metatranscriptomics study suggests that the host diversity of viroids and other viroid-like elements is broader than previously thought and that it would not be limited to plants, encompassing even the prokaryotes.[5]

i had vaguely heard abt viroids, but did not know they are only identified in angiosperms (not even all plants). also:

Although viroids are composed of nucleic acid, they do not code for any protein.[10][11] The viroid's replication mechanism uses RNA polymerase II, a host cell enzyme normally associated with synthesis of messenger RNA from DNA, which instead catalyzes "rolling circle" synthesis of new RNA using the viroid's RNA as a template. Viroids are often ribozymes, having catalytic properties that allow self-cleavage and ligation of unit-size genomes from larger replication intermediates.[12]

there are "viroid-like" viruses in animals, which unlike viroids code for proteins but like viroids are circular RNA (and also maybe lack a shell. but they havent been observed, just sequenced). maybe angiosperms have unusually shitty immune systems, so a virus can replicate without any tricks?

[trendingreportz]

Metagenomics Market - Forecast(2024 - 2030)

Metagenomics Market Overview

Metagenomics Market size is estimated to reach $1.5 billion by 2027, growing at a CAGR of 16.2% during the forecast period 2022-2027. Metagenomics is the examination of genetic material reclaimed directly from environmental samples. The expansive field may also be specified as environmental genomics, eco-genomics or community genomics. Shotgun metagenomic sequencing is a comparatively novel environmental sequencing technique utilized to analyze thousands of organisms in parallel and completely sample all genes, offering acumen into community biodiversity and function. 16S rRNA gene sequencing is typically restricted to recognizing bacteria at the genus level (e.g. Bifidobacteria). De novo assembly has been a necessary instrument in current investigations in metagenomics viral analysis. Glycoside hydrolases (GHs) are amidst the industrially significant enzymes that are widely explored by way of metagenomics owing to their very great expedience and significance in food and additional industrial sectors. Whole-genome sequencing offers added information on the nature and localization of antimicrobial resistance factors and on their dissemination possibility by horizontal gene delivery, and on genes connecting to virulence and biological fitness. Interoperable data will play a principal role in the forthcoming utilization of whole genome sequencing and metagenomic data.

The COVID-19 pandemic is set to drive the Metagenomics Market owing to the extensive utilization of technologies like Metagenomics in pandemic hazard computations to detect the molecular alterations in pathogens at the time of their worldwide rise, which could help in the forecast of rising hotspots, populations at risk, and the pathogens under genetic evolution as per the research article issued in Future Science, 2021. The burgeoning interest of researchers in related new research fields like metatranscriptomics, metaproteomics, and metabolomics has inspired microbiologists to investigate related workflows` in conjunction with novel techniques like shotgun metagenomic sequencing and is set to propel the growth of the Metagenomics Market during the forecast period 2022-2027. This represents the Metagenomics Industry Outlook.

Report Coverage

The report: “Metagenomics Market Forecast (2022-2027)”, by Industry ARC, covers an in-depth analysis of the following segments of the Metagenomics Market.

By Product: Sequencing And Data Analytics Services, Kits And Reagents, Others. By Technology: Sequencing Driven, Function Driven. By Application: Human Health, Environmental, Others. By Geography: North America (the U.S, Canada, and Mexico), South America (Brazil, Argentina, Chile, Colombia, Rest of South America), Europe (Germany, France, UK, Italy, Spain, Russia, and Rest of Europe), Asia-Pacific (China, Japan, South Korea, India, Australia & New Zealand, and Rest of Asia-Pacific), and Rest Of The World (Middle East, Africa). 

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Key Takeaways

Geographically, North America Metagenomics Market accounted for the highest revenue share in 2021 and it is poised to dominate the market over the period 2022-2027 owing to the existence of a soaring count of pharmaceutical and biotechnological firms developing new and effective metagenomic platforms in conjunction with novel techniques like shotgun metagenomic sequencing in the North American region.

Metagenomics Market growth is being driven by the technological advancements in DNA sequencing in conjunction with the development of novel techniques like shotgun metagenomic sequencing. However, the soaring cost of complete metagenomics is one of the major factors hampering the growth of the Metagenomics Market.

Metagenomics Market Detailed Analysis on the Strength, Weakness, and Opportunities of the prominent players operating in the market will be provided in the Metagenomics Market report. 

Metagenomics Market Segment Analysis – By Product:

The Metagenomics Market based on products can be further segmented into Sequencing And Data Analytics Services, Kits And Reagents, and Others. The Kits And Reagents Segment held the largest market share in 2021. This growth is owing to the considerable count of kits and reagents being introduced and utilized to back the increasing demand for library preparation workflows from research laboratories. The boost in the rate of application and the great infiltration in conjunction with the extensive application of shotgun metagenomic sequencing is further propelling the growth of the genome engineering segment.

Furthermore, the Sequencing And Data Analytics Services segment is estimated to grow with the fastest CAGR of 16.9% during the forecast period 2022-2027 owing to the accelerated and considerable cost minimization in next-generation sequencing which has productively expedited the growth of sequence-based metagenomics in conjunction with the soaring application of shotgun metagenomic sequencing.

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Metagenomics Market Segment Analysis – By Technology:

The Metagenomics Market based on technology can be further segmented into Sequencing Driven and Function Driven. The Sequencing Driven Segment held the largest market share in 2021. This growth is owing to the soaring application of this technology. The burgeoning acceptance of this technology may be ascribed to the onset of new bioinformatics-associated solutions, which make workflows easy and offers accelerated outcomes. shotgun metagenomic sequencing permits researchers to exhaustively sample all genes in all organisms existing in a given complex sample. Surging endeavors to keep up a standard database and increase in the count of metagenome samples accumulated at data repositories are further propelling the growth of this segment.

Furthermore, the Function Driven segment is estimated to grow with the fastest CAGR of 17.1% during the forecast period 2022-2027 owing to the increasing application of function-driven metagenomics for protein screening applied to antibiotic resistance and vitamin manufacture in conjunction with the proliferating application of shotgun metagenomic sequencing.

Metagenomics Market Segment Analysis – By Geography:

The Metagenomics Market based on geography can be further segmented into North America, Europe, Asia-Pacific, South America, and the Rest of the World. North America (Metagenomics Market) held the largest share with 36% of the overall market in 2021. The growth of this region is owing to the surging spend on R&D. The extensive acceptance of metagenomic diagnostic, an expanding count of next-generation sequencing(NGS) based research endeavors in conjunction with increased application of shotgun metagenomic sequencing and the existence of key players like Illumina Inc., in the region are propelling the growth of the Metagenomics market in the North American region.

Furthermore, the Asia-Pacific region is estimated to be the region with the fastest CAGR rate over the forecast period 2022-2027. This growth is owing to factors like consistent developments performed to build up the bioinformatics infrastructure and genomic landscape in nations like India and China. The considerable fluctuation in climate and environment in the region together with the heightening application of shotgun metagenomic sequencing is fuelling the progress of the Metagenomics market in the Asia-Pacific region.

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Metagenomics Market Drivers

Increased Application Of Shotgun Metagenomic Sequencing Is Projected To Drive The Growth Of Metagenomics Market:

Shotgun metagenomic sequencing developed by Illumina Inc., permits researchers to completely sample all genes in all organisms existing in a given complex sample. The technique allows microbiologists to assess bacterial diversity and discover the profusion of microbes in different environments. Shotgun metagenomics also offers a means to investigate unculturable microorganisms that are otherwise hard or impossible to evaluate. Unlike capillary sequencing or PCR-based techniques, next-generation sequencing (NGS) permits researchers to sequence thousands of organisms in parallel. With the capability to integrate abundant samples in a single sequencing run and acquire high sequence coverage per sample, NGS-based metagenomic sequencing can discover very low abundance members of the microbial community that may be unnoticed or are too high-priced to recognize utilizing additional techniques. The surging application of shotgun metagenomic sequencing is fuelling the growth of the Metagenomics Market during the forecast period 2022-2027.

Benefits Of 16S rRNA Sequencing Are Expected To Boost The Demand Of Metagenomics:

16S rRNA Sequencing is a typical amplicon sequencing technique utilized to recognize and compare bacteria existing within a given sample. The prokaryotic 16S rRNA gene is almost 1500 bp long, with nine variable regions integrated between conserved regions. Variable regions of the 16S rRNA gene are generally utilized for the phylogenetic classification of genus or species in different microbial populations. An essential advantage of 16S rRNA Sequencing is that it offers an affordable method to recognize strains that may not be discovered utilizing conventional techniques. Unlike capillary sequencing or PCR-based techniques, next-generation sequencing (NGS) is a culture-free technique that allows investigation of the complete microbial community within a sample. 16S rRNA NGS permits microbiologists to accomplish genus-level sensitivity for metagenomic examinations of bacterial populations. The advantages of 16S rRNA Sequencing are driving the growth of the Metagenomics Market during the forecast period 2022-2027.

Metagenomics Market Challenges

Databases For Metagenomic Data Present Challenges To The Growth Of The Metagenomics Market:

Absorbing the sequence that will be produced by metagenomics projects will be demanding for the nucleic acid sequence data archive. Adding to the archiving challenge, it is evident that the community will need novel, secondary databases if the data are to be utilized efficiently. Only a specially-designed database will be able to provide constant storage and querying of the abundant metadata that metagenomic sequences require. The investigation of metagenomic sequences will need computational programs that are best provided in the context of a specially-designed database, for example, programs for the clustering of metagenomic sequence reads or for time-series analysis. And metagenomic data must be combined with data from distinct projects, like satellite data on ocean temperatures and time-series data on alterations in ocean salinity. This issue is hampering the growth of the Metagenomics Market.

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Metagenomics Market Landscape:

Product launches, technological advancements, collaborations, mergers and acquisitions, financing in R&D activities, partnerships, and joint ventures are key strategies adopted by players in this Market. Metagenomics top 10 companies include:

Thermo Fisher Scientific, Inc.

QIAGEN

Illumina, Inc.

Promega Corporation

Novogene Co., Ltd.

Takara Bio, Inc

Oxford Nanopore Technologies

Arc Bio, LLC.

Eurofins Scientific

Zymo Research

Acquisitions/Product Launches:

In November 2021, QIAGEN declared the inclusion of StableScript™ to the OEM portfolio. The versatile reverse transcriptase is planned for application in one-step RT-qPCR and long-range RT-PCR and is accessible to order in bulk amounts. The launch of reverse transcriptases has permitted polymerase chain reaction (PCR) to be adapted to RNA and the establishment of cDNA libraries from mRNA.

In October 2021, QIAGEN N.V. declared the introduction and CE marking of QIAreach® QuantiFERON®-TB test for tuberculosis (TB) infection, to assist in accomplishing TB removal targets worldwide by boosting access to effortless and trustworthy TB testing, specifically in great burden countries, low-resource regions. A breakthrough in the battle against a pathogen estimated to be carried by over two billion people globally established on the proven QuantiFERON-TB Gold Plus technology, QIAreach® QuantiFERON®-TB is a portable instrument that allows the ultrasensitive digital discovery of TB infection with an end-to-end workflow that is clear and cost-efficient and raises access to trustworthy Interferon Gamma Release Assay (IGRA) testing. QIAGEN will target regions that encounter a huge burden of the ailment, and where procuring access to laboratory infrastructure and resources for testing is restricted.

In July 2021, QIAGEN N.V. declared the introduction of the Workflow Configurator, allowing researchers in the life sciences to effortlessly and speedily discover the best solutions to make their experiments perfect. Purchasers simply select their application, biological starting material, analyte, and analysis type. In seconds, the configurator arranges by way of hundreds of possible products to detect the most appropriate workflow and related products.

[leedsomics]

Identification of novel fructo-oligosaccharide bacterial consumers by pulse metatranscriptomics in a human stool sample

Dietary fibres influence the composition of the human gut microbiota and directly contribute to its downstream effects on host health. As more research supports the use of glycans as prebiotics for therapeutic applications, the need to identify the gut bacteria that metabolize glycans of interest increases. Fructooligosaccharide (FOS) is a common diet-derived glycan that is fermented by the gut microbiota and has been used as a prebiotic. Despite being well studied, we do not yet have a complete picture of all FOS-consuming gut bacterial taxa. To identify new bacterial consumers, we used a short exposure of microbial communities in a stool sample to FOS or galactomannan as the sole carbon source to induce glycan metabolism genes. We then performed metatranscriptomics, paired with whole metagenomic sequencing (WMS), and 16S amplicon sequencing. The short incubation induced genes involved in carbohydrate metabolism, like carbohydrate-active enzymes (CAZymes), including glycoside hydrolase family 32 genes, which hydrolyze fructan polysaccharides like FOS and inulin. Interestingly, FOS metabolism transcripts were notably overexpressed in Blautia species not previously reported to be fructan consumers. We therefore validated the ability of different Blautia species to ferment fructans by monitoring their growth and fermentation in defined media. This pulse metatranscriptomics approach is a useful method to find novel consumers of prebiotics and increase our understanding of prebiotic metabolism by CAZymes in the gut microbiota. http://dlvr.it/TBM7DX

[rnomics]

Viruses, Vol. 16, Pages 1152: Metatranscriptomic Sequencing of Sheath Blight-Associated Isolates of Rhizoctonia solani Revealed Multi-Infection by Diverse Groups of #RNA Viruses

Rice sheath blight, caused by the soil-borne fungus Rhizoctonia solani (teleomorph: Thanatephorus cucumeris, Basidiomycota), is one of the most devastating phytopathogenic fungal diseases and causes yield loss. Here, we report on a very high prevalence (100%) of potential virus-associated double-stranded #RNA (ds#RNA) elements for a collection of 39 fungal strains of R. solani from the rice sheath blight samples from at least four major rice-growing areas in the Philippines and a reference isolate from the International Rice Research Institute, showing different colony phenotypes. Their ds#RNA profiles suggested the presence of multiple viral infections among these Philippine R. solani populations. Using next-generation sequencing, the viral sequences of the three representative R. solani strains (Ilo-Rs-6, Tar-Rs-3, and Tar-Rs-5) from different rice-growing areas revealed the presence of at least 36 viruses or virus-like agents, with the Tar-Rs-3 strain harboring the largest number of viruses (at least 20 in total). These mycoviruses or their candidates are believed to have single-stranded #RNA or ds#RNA genomes and they belong to or are associated with the orders Martellivirales, Hepelivirales, Durnavirales, Cryppavirales, Ourlivirales, and Ghabrivirales based on their coding-complete #RNA-dependent #RNA polymerase sequences. The complete genome sequences of two novel #RNA viruses belonging to the proposed family Phlegiviridae and family Mitoviridae were determined. https://www.mdpi.com/1999-4915/16/7/1152?utm_source=dlvr.it&utm_medium=tumblr

[entomoblog]

Les effets des soins maternels sur l'expression des gènes et le microbiome d'une abeille sauvage tout au long de son développement 

See on Scoop.it - EntomoNews

The effects of maternal care on the developmental transcriptome and metatranscriptome of a wild bee

Katherine D. Chau, Mariam Shamekh, Jesse Huisken & Sandra M. Rehan Published: 14 September 2023 Communications Biology

  [Image] Development of Ceratina calcarata offspring in the presence or absence of mothers.

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NDÉ

Traduction

  Les soins maternels agissent comme un stimulus environnemental fort qui peut induire une plasticité phénotypique chez les animaux et peut également modifier leurs communautés microbiennes tout au long du développement.

  Ici, nous caractérisons le métatranscriptome de développement de la petite abeille charpentière, Ceratina calcarata, à travers les stades de développement et en présence ou en absence des mères. Les soins maternels ont eu la plus grande influence au cours du développement précoce, avec le plus grand nombre et la plus grande ampleur de gènes différentiellement exprimés entre les traitements de soins maternels, et l'enrichissement pour les facteurs de transcription régulant la réponse immunitaire dans les larves précoces sans mère.

  Les données métatranscriptomiques ont révélé que les champignons étaient le groupe le plus abondant dans le microbiome, Aspergillus étant le plus abondant chez les larves précoces élevées sans mère.

  Enfin, l'analyse intégrative entre le transcriptome de l'hôte et le métatranscriptome met en évidence plusieurs champignons en corrélation avec les gènes du développement et de l'immunité.

  Nos résultats permettent de caractériser l'influence des soins maternels sur l'expression des gènes et le microbiome tout au long du développement d'une abeille sauvage.

[drsueishaq]

Rumening through camel microbes, by Myra Arshad

Rumening through camel microbes, by Myra Arshad

Written by Myra Arshad Did you know that camels have three stomach chambers or that they have to throw up their own food in order to digest their food properly? Have you felt excluded from science spaces before? Then this blog post is for you! Allow me to introduce myself.  My name is Myra, and I am a rising senior at SUNY Stony Brook University, where my major is Ecosystems and Human Impact,…

[biomededgene]

Applications of Metatranscriptomics: Unveiling the Microbial World

In a world teeming with microscopic life, the vast majority of microbes remain hidden from view, yet they play crucial roles in everything from our health to the environment. While traditional methods have focused on studying microbial DNA, a new frontier has emerged: metatranscriptomics. This powerful technique goes beyond identifying microbes by revealing their active genetic activity—what they’re doing right now.

Metatranscriptomics is a powerful tool that offers a deeper understanding of microbial ecosystems by examining gene expression at the RNA level. Its applications are vast and diverse, ranging from environmental monitoring to healthcare and biotechnology. As the technology continues to evolve, we can expect even more groundbreaking discoveries that will shape the future of medicine, agriculture, and environmental conservation. By unlocking the secrets of microbial gene activity, metatranscriptomics provides a unique perspective on the dynamic world of microorganisms and their impact on our lives.

To learn more, visit us at: https://edgenebiomed.com/

[biodiscovery-group]

#Metatranscriptomics | 4-Day Technical & Hands-on Online Certificate Training in RNA expression analysis using microbiome RNA-seq data https://www.bdglifesciences.com/workshops-online #envisionwithbdg #itsdifferentbybiodiscovery #bdglifesciences #bioinformaticscompany #10yearsofexcellence #genomics #integrativegenomics #functionalgenomics #computationalgenomics #metagenomics #genomeanalysis #microbiomeanalysis #rna_expression #biotechnology #biotech #bioindia #biotechasia #bioinformatics #bioinfo #bioinfoindia #biotechindia #onlinebioinformatics #bioinformaticsworkshop #onlinebioinformaticscourse #bioinformaticsonlinetraining https://www.instagram.com/p/CGkfakJD86M/?igshid=cmue1yc701n1

[jordivegcs-blog]

ابحاث عن النمل الابيض

التعايشات الثلاثية التي تشمل المضيف والبكتيريا والطفيليات ؛ بينما في النمل الأبيض الأعلى ، تم تقليل التعايش إلى ارتباط ثنائي الاتجاه بين المضيف والبكتيريا (لكن بعض النمل الأبيض الأعلى يحتفظون أيضًا بارتباطات تكافلية مع الفطريات ؛ برون ، 2014). يضيف المكون المضيف للأنظمة التكافلية للنمل الأبيض بشكل كبير إلى عملية الجهاز الهضمي سواء من حيث المساهمة في الإنزيمات والحفاظ على بيئة ميكروية دقيقة للأمعاء لحدوث التعايش والهضم (واتانابي وآخرون ، 1998 ؛ تارتار وآخرون ، 2009 ؛ شارف وآخرون. ، 2011؛ ​​Sethi et al.، 2013a؛ ​​Tokuda et al.، 2014). بسبب الدرجة العالية من التفاعل الذي يحدث بين النمل الأبيض والمتعايشين الأمعاء ، فإن الفكرة الرئيسية للمضي قدمًا هي النظر إلى النمل الأبيض من منظور "الهولوبيون" (وحدة وظيفية واحدة يرتبط فيها المضيف والمتعايشون بشكل وثيق من الناحية الفسيولوجية) . مكنت أبحاث Omic من فهم نظامي متعدد الأوجه لهضمات الأمعاء التي تعتبر أساسية لفهم holobiome النمل الأبيض من منظور تطبيقي (Scharf ، 2015).

الشكل 2 www.frontiersin.org الشكل 2. الأفكار الأساسية وراء البحوث الهضمية والجينومية في النمل الأبيض. (أ) المكونات الرئيسية المرتبطة هضم النمل الأبيض والبحث الهضمي. تمت دراسة مناطق الأمعاء المختلفة في محاولة لتشريح المضيف والمساهمة المتضامنة في الهضم. هناك تمييز مهم بين النمل الأبيض الأدنى والأعلى هو وجود التعايش البروتي والبكتيرية في النمل الأبيض الأدنى ، والبكتيريا فقط في النمل الأبيض الأعلى. (ب) التحولات المرتبطة بالطبقات والظهور التي يتم تناولها من خلال البحوث الاجتماعية الجينية. اليسار: الأنماط الظاهرية غير المتكاثرة أو "الفاحشة" (بدون أجنحة) من النمل الأبيض السفلي. يميز الضباط والجنود عن العمال استجابة لارتفاع هرمون الأحداث (JH). على اليمين: الحوريات تولد زميلات تتحول إلى إنتاجات أولية. عملية شبيهة بالتطور النمطي للحشرة النصف هيمائية.

علم الاجتماع الاجتماعي و Digestomics تم ابتكار مصطلح علم الاجتماع الاجتماعي لوصف استخدام مناهج omic لتعريف الحياة الاجتماعية بالمصطلحات الجزيئية ، والتي بدأت بدراسات حول نحل العسل Apis mellifera (Robinson et al.، 2005). هناك فكرة موازية تم الاستشهاد بها كأساس منطقي للعديد من دراسات omic في الحشرات الاجتماعية ، بما في ذلك النمل الأبيض ، وهي أن الجينات والسمات الانفرادية تم اختيارها على الأرجح لوظائف جديدة حيث انتقل الأسلاف الانفراديون إلى أنماط الحياة الاجتماعية (West-Eberhard، 2003؛ Nelson et al.، 2007). يعد فهم هذه السمات أمرًا ضروريًا لفهم التطور الاجتماعي للنمل الأبيض (Miura and Scharf ، 2011 ؛ الشكل 2 ب). مصطلح آخر يستخدم بشكل خاص فيما يتعلق بالبحث في الجهاز الهضمي هو digestomics ، والذي تم صياغته لوصف التجمع الجماعي لجينات المضيف والمتعايش التي تتعاون لتحقيق هضم lignocellulose عالي الكفاءة في أمعاء النمل الأبيض (Scharf and Tartar ، 2008 ؛ Tartar et al. ، 2009 ؛ الشكل 2 أ). هذه المصطلحات مفيدة بسبب العدد الكبير من المتعايشين الذين يشغلون شجاعة النمل الأبيض ويتعاونون مع المضيف في الهضم lignocellulose. المصطلح ذو الصلة هو النمل الأبيض ، وهو المكمل الكامل للميكروبات المعوية والميكروتينية (العش) الموجودة في النمل الأبيض ، ومستعمرات النمل الأبيض ، وهياكل العش المحيطة بها (Roose-Amsaleg et al. ، 2004 ؛ Bastien et al. ، 2013). سواء فيما يتعلق بالجينات الاجتماعية أو الانفرادية أو التكافلية أو البروتينات أو الجزيئات الحيوية الأخرى ، فإن الأبحاث الاجتماعية والجينية والهضمية في النمل الأبيض قد خلقت انفجارًا في بيانات تسلسل جديدة.

دراسات Omic في النمل الأبيض: ما تم عمله؟ استنادًا إلى مسح أدبي حديث (الجدول 1) ، في وقت كتابة هذا المقال ، تم نشر حوالي 70 ورقة تصف جهود omic في أنظمة النمل الأبيض. تشمل هذه الدراسات جميع الموضوعات المقدمة أعلاه ، بالإضافة إلى المسوحات الميكروبية 16S و 18S.

التوزيع التصنيفي في المجموع ، تم التحقيق في 82 نوعًا من النمل الأبيض باستخدام أساليب مختلفة من النحل ، مع تمثيل أكبر بنسبة أقل من النمل الأبيض الأعلى (72 مقابل 28 ٪). من بين النمل الأبيض الأدنى ، فإن الأجناس الأعلى التي تمت دراستها هي مجموعات آفات مهمة (Reticulitermes و Coptotermes) ، تليها غير الآفات من Hodotermopsis و Mastotermes و Cryptotermes. من بين أجناس النمل الأبيض الأعلى ، تهيمن Nasutitermes ، تليها Odontotermes ، Trinervitermes ، والعديد من المجموعات الثانوية الأخرى. تم نشر تسلسلين جينوم النمل الأبيض الآن من النمل الأبيض السفلي Zootermopsis angusticollis والنمل الأبيض الأعلى Macrotermes natalensis (انظر أدناه).

المضيف مقابل Symbiont تحقيق من بين مختلف الدراسات الجامدة حتى الآن بالنظر إلى التكافل والشراكات التكافلية في أنظمة النمل الأبيض ، اتخذت الغالبية نهجًا حصريًا موجهًا للتعاطف (> 60 ٪) ، في حين أن أقلية اعتبرت النمل الأبيض المضيف بشكل منفصل (<20 ٪). وقد اعتبر الباقي المضيف والتعاطف معًا (∼20٪). في الفئة الأخيرة من المضيف والمتعاضد مجتمعة ، كانت بعض الدراسات حالة "مصفوفة ميتاترانسكريبتومكس" (لأن المتعاطفات البروتينية لها نصوص polyadenylated ممثلة في مكتبات cDNA مع نصوص المضيف ؛ على سبيل المثال ، Scharf وآخرون ، 20035 ؛ Steller et al.، 2010) ، لكن البعض الآخر كان دراسات مقصودة متروية مقصودة (على سبيل المثال ، Tartar et al.، 2009؛ Raychoudhury et al.، 2013؛ Sen et al.، 2013). من المرجح أن يكون التركيز الأكبر على الأمعاء المعوية مقارنة بالنمل الأبيض المضيف بسبب الوجود النمطي المعترف به جيدًا لميكروبات الأمعاء في النمل الأبيض.المناهج التجريبية وأنواع التسلسل من حيث المناهج التجريبية المتخذة ، كان هناك انقسام متساو تقريبًا بين الدراسات الوصفية والدراسات التي تعتمد على الفرضية. فيما يتعلق بأنواع التسلسل التي تم إجراؤها ، كانت النسخ المترجمة و metatranscriptomics هي النهج السائدة (25 و 21 ٪ من الدراسات) ، تليها المسوحات الميكروبية لأغراض الفهرسة (23 ٪). يمكن تقسيم المناهج transcriptomic المستخدمة بشكل أكبر إلى منهجيات مختلفة مثل تسلسل مكتبة كدنا (سانجر ، البيروسيكوينغ أو Illumina RNA-seq) والمصفوفات الدقيقة. استهدفت جهود أخرى الجينوم المتكافل (15٪) والجينوم المتكافل أو النمل الأبيض (9٪) والبروتينات (3٪) وميثيلوم DNA (3٪). ، 200

[black-water-simping-ships]

looking through my lecture notes on microbiology and i just love having to write during english lectures because i am slower and less inhibited so:

studying another country’s Bd is now very very difficult

open databases -> :)

microscopy mostly dead

fingerprint still important bc optic stuff all looks the same

REM: 90% of Bacteria are fucking rods.

(probe needs to enter because is stressful i guess.)

we have lotsa data but don’t know shit

Metatranscriptomics fuckin A

some phyla can’t germinate without friends

[shitty drawing of Trump: YUUGE DIVERSITY]

Amish, not-so-amish (traitors), normal people

staining with red juice - what is stained? nobody knows

“gut” microbiome actually “shit” microbiome

[leedsomics]

Metatranscriptomics reveals declines in ice cover influence winter viral community activity

Freshwater lakes are sentinels of environmental change, and climate change-driven declines in ice cover have been shown to disrupt aquatic communities and jeopardize ecosystem services. Viruses shape microbial communities and regulate biogeochemical cycles by acting as top-down controls, yet there is relatively little known about how declining ice cover will influence viral community activity. Lake Erie is a critical freshwater ecosystem and serves as a model system to assess how ice cover extent will affect winter limnology. We surveyed size selected surface water metatranscriptomes for conserved viral hallmark genes as a proxy for active virus populations and compared activity profiles between ice-covered and ice-free conditions from two contrasting winters. Active virus communities were present in both conditions, spanning diverse phylogenetic clades of bacteriophage (Caudovirales), giant viruses (Nucleocytoviricota), and RNA viruses (Orthornavirae). However, viral activity was significantly shaped by the extent of ice cover. Notably, viral richness and relative transcript abundance in the surface waters were reduced under ice relative to the ice-free conditions. Correlations with microbial community metrics suggest the differences in viral communities are at least in part driven by the decreased winter diatom bloom associated with declines in ice cover. Overall, our data suggest viral community activity is influenced by ice cover extent, and viruses may serve as sentinels of environmental disturbance and ecosystem response(s) to climate change. http://dlvr.it/T4y561

[robertbturnerfl]

Microbiome Insights Launches Cutting-Edge Metatranscriptomic Sequencing Services

Vancouver, B.C. May 22, 2023 – Microbiome Insights Inc., a global leader in microbial sequencing and bioinformatic analysis, is pleased to announce the launch of its new metatranscriptomic sequencing services. Utilizing cutting-edge high-throughput sequencers, sequencing strategies, and advanced bioinformatics pipelines, the service is ideal for academic, clinical, and industry researchers looking for the next breakthrough in microbial characterization.

The metatranscriptomic sequencing service at Microbiome Insights follows a rigorous workflow that includes experimental design and sampling, RNA extraction, library preparation, quality control, and bioinformatic analysis. The new service allows researchers to gain insights into gene expression and pinpoint active metabolic pathways within microbial communities.

“The microbiome field has made incredible progress, but the complexity of this research means we need to use additional tools to advance our scientific understanding,” said Malcolm Kendall, Microbiome Insights’ CEO. “We could not be more excited to add metatranscriptomic sequencing to our services, as this technology can provide a much more comprehensive understanding of the microbiome and its functional outcomes.”

Metatranscriptomics analyzes all RNA molecules produced by the microorganisms present in a particular environment, with high-throughput RNA sequencing providing information on metabolic activities and functional roles of different microbial species in an ecosystem. Given its focus on messenger RNA analysis, metatranscriptomics enables researchers to investigate the cellular response to various conditions experienced by microorganisms. Samples suitable for metatranscriptomic sequencing include fecal, saliva, tissue, and vaginal swabs, as well as environmental samples.

Microbiome Insights is committed to delivering the highest standard of support to their clients. They work closely with clients to understand their specific research goals and provide solutions that best meet their needs. Microbiome Insights’ metatranscriptomic sequencing service now allows researchers to bring their analysis of microbial communities to a new level. For more information on Microbiome Insights’ metatranscriptomic sequencing services, please visit www.microbiomeinsights.com.

About Microbiome Insights Inc.

Microbiome Insights, Inc. is a global leader providing end-to-end microbiome sequencing and comprehensive bioinformatics analysis. The company is headquartered in Vancouver, Canada, where samples from around the world are processed in its College of American Pathologists (CAP) accredited laboratory. Working with clients from pharma, biotech, nutrition, cosmetic and agriculture companies, and world-leading academic and government research institutions, Microbiome Insights has supported over nine hundred microbiome studies, from basic research to commercial R&D and clinical trials. The company’s expert bioinformaticians and data scientists deliver industry-leading insights, including biomarker discovery, machine-learning-based modelling, and customized bioinformatics analysis.

  Originally published at https://presssynergy.com/newsroom/microbiome-insights-launches-cutting-edge-metatranscriptomic-sequencing-services/

Company Name: Microbiome Insights Inc. Contact Person: Malcolm Kendall Address: 13520 Crestwood Place Unit 12 City: Richmond State: BC Country: Canada Website: https://microbiomeinsights.com/

source https://presssynergy.com/newsroom/microbiome-insights-launches-cutting-edge-metatranscriptomic-sequencing-services/ from Press Synergy https://presssynergy1.blogspot.com/2023/05/microbiome-insights-launches-cutting.html

[rnomics]

Metatranscriptomic assessment of diarrhoeic faeces reveals diverse #RNA viruses in rotavirus group A infected piglets and calves from India

#RNA viruses are a major group contributing to emerging infectious diseases and neonatal diarrhoea, causing morbidity and mortality in humans and animals. Hence, the present study investigated the metatranscriptomic-derived faecal #RNA virome in rotavirus group A (RVA)-infected diarrheic piglets and calves from India. The viral genomes retrieved belonged to Astroviridae in both species, while Reoviridae and Picornaviridae were found only in piglets. The nearly complete genomes of porcine RVA (2),... https://pubmed.ncbi.nlm.nih.gov/37965252/?utm_source=dlvr.it&utm_medium=tumblr&utm_campaign=None&utm_content=1RYYbE7j9SUSBe_aHniaI_J1MQIFIBbfLuFxoWdLNMNDzVVIWF&fc=None&ff=20231117184011&v=2.17.9.post6%2086293ac