Identification and characterization of a novel thermostable xylanase from camel rumen metagenome

Ariaeenejad, Shohreh; Hosseini, Elaheh; Maleki, Mohsen; Kavousi, Kaveh; Moosavi-Movahedi, Ali Akbar; Salekdeh, Ghasem Hosseini

doi:10.1016/j.ijbiomac.2018.12.041

Cited by 50 publications

(32 citation statements)

References 51 publications

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“…The metagenomic xylanase (Mxyl) was successfully employed for bleaching paper pulp samples in the paper industry, and an approximately 24% reduction in chlorine consumption was achieved (Verma et al, 2013a). Similarly, Ariaeenejad et al (2019) also report the applicability of camel rumen metagenome-derived xylanase (PersiXyn1) in biobleaching of carton paper pulp. The recombinant enzyme (Mxyl) also finds application in saccharification of agro-residues (wheat bran, corn cob, sugarcane bagasse) for generating XOs of low DP of 2-4 xylose units (Verma et al, 2013b).…”

Section: Utility Of Metagenomic Xylanolytic Enzymesmentioning

confidence: 93%

Xylanolytic Extremozymes Retrieved From Environmental Metagenomes: Characteristics, Genetic Engineering, and Applications

Verma

Satyanarayana

2020

Front. Microbiol.

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Xylanolytic enzymes have extensive applications in paper, food, and feed, pharmaceutical, and biofuel industries. These industries demand xylanases that are functional under extreme conditions, such as high temperature, acidic/alkaline pH, and others, which are prevailing in bioprocessing industries. Despite the availability of several xylan-hydrolyzing enzymes from cultured microbes, there is a huge gap between what is available and what industries require. DNA manipulations as well as protein-engineering techniques are also not quite satisfactory in generating xylanhydrolyzing extremozymes. With a compound annual growth rate of 6.6% of xylanhydrolyzing enzymes in the global market, there is a need for xylanolytic extremozymes. Therefore, metagenomic approaches have been employed to uncover hidden xylanolytic genes that were earlier inaccessible in culture-dependent approaches. Appreciable success has been achieved in retrieving several unusual xylanolytic enzymes with novel and desirable characteristics from different extreme environments using functional and sequence-based metagenomic approaches. Moreover, the Carbohydrate Active Enzymes database includes approximately 400 GH-10 and GH-11 unclassified xylanases. This review discusses sources, characteristics, and applications of xylanolytic enzymes obtained through metagenomic approaches and their amelioration by genetic engineering techniques.

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Section: Utility Of Metagenomic Xylanolytic Enzymesmentioning

confidence: 93%

Xylanolytic Extremozymes Retrieved From Environmental Metagenomes: Characteristics, Genetic Engineering, and Applications

Verma

Satyanarayana

2020

Front. Microbiol.

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“…A novel thermo-stable xylanase showing a high activity in a broad pH and temperature range was discovered in the dromedary rumen metagenome, suggesting a potential application in some industrial sectors (e.g. camel faeces paper, biofuel, textile, green plastics industry; Ariaeenejad et al 2019).…”

Section: Gut Bacterial Communitiesmentioning

confidence: 99%

Old World camels in a modern world – a balancing act between conservation and genetic improvement

Burger¹,

Ciani

Faye

2019

Animal Genetics

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Old World camels have served humans in cross-continental caravans, transporting people and goods, connecting different cultures and providing milk, meat, wool and draught since their domestication around 3000-6000 years ago. In a world of modern transport and fast connectivity, these beasts of burden seem to be out-dated. However, a growing demand for sustainable milk and meat production, especially in countries affected by climate change and increasing desertification, brings dromedaries (Camelus dromedarius) and Bactrian camels (Camelus bactrianus) back onstage and into the focus of animal breeders and scientists. In this review on the molecular genetics of these economically important species we give an overview about the evolutionary history, domestication and dispersal of Old World camels, whereas highlighting the need for conservation of wild two-humped camels (Camelus ferus) as an evolutionarily unique and highly endangered species. We provide cutting-edge information on the current molecular resources and on-going sequencing projects. We cannot emphasise enough the importance of balancing the need for improving camel production traits with maintaining the genetic diversity in two domestic species with specific physiological adaptation to a desert environment.

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“…Advancements in sequencing technologies and metagenomics have revolutionized our access to a wealth of sequence data from enzymes with possible industrial applications. In comparison with our previous two studies, in which xylanase enzymes from the metagenomic source were identified and characterized by experimental techniques (10,11) , TAXyl enabled the identification of more putative thermoactive xylanases and enhanced the extended exploration of the metagenomic data as well as validating our two previously characterized enzymes. This tool can be implemented to significantly reduce the number of potential candidates of xylanases with a specific thermal activity profile before engaging the wet-lab experiments.…”

mentioning

confidence: 57%

“…Therefore, metagenomics provides access to almost all the genetic material inside an 4 environmental sample. However, experimental functional annotation of newly identified genes is becoming a significant challenge (10,11). Utilizing an in-silico approach to address this problem can make a notable contribution.…”

Section: Introductionmentioning

confidence: 99%

A generalized machine-learning aided method for targeted identification of industrial enzymes from metagenome: a xylanase temperature dependence case study

Shahraki

Farhadyar

Kavousi

et al. 2019

Preprint

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Xylanases are a class of enzymes with numerous industrial applications and are involved in the degradation of xylose polysaccharide, which is present in lignocellulosic biomass. The optimum temperature of enzymes is the indicator of their thermal activity and is an essential factor to be considered when choosing an appropriate biocatalyst for a particular purpose. Therefore, insilico prediction of this enzymatic attribute is a significant cost and time-effective step in the effort to identify and characterize novel enzymes. The objective of this study was to develop an accurate computational method to predict the thermal activity status of xylanases from glycoside hydrolases families 10 and 11, the most prevalent known xylanase families. Here we present TAXyl (Thermal Activity Prediction for Xylanase), a new sequence-based machine learning method that has been trained using a selected combination of various physicochemical protein features. This ensemble of four supervised learning algorithms discriminates mesophilic, thermophilic, and hyper-thermophilic xylanases based on their optimum temperature with the process of soft-voting. TAXyl's performance was ultimately evaluated through multiple iterations of six-fold cross-validations, and it exhibited a mean accuracy of ~0.94, F1-score of ~0.91, and MCC of ~0.9. Additionally, the model was tested on previously unseen data and depicted relatively similar performance. To the best of our knowledge, this tool is the most accurate and practical prediction tool currently available and operating on this class of enzymes.TAXyl is freely accessible as a web-service at http://arimees.com/ and provides users with several features to facilitate the characterization of GH10 and GH11 xylanases.

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Identification and characterization of a novel thermostable xylanase from camel rumen metagenome

Cited by 50 publications

References 51 publications

Xylanolytic Extremozymes Retrieved From Environmental Metagenomes: Characteristics, Genetic Engineering, and Applications

Xylanolytic Extremozymes Retrieved From Environmental Metagenomes: Characteristics, Genetic Engineering, and Applications

Old World camels in a modern world – a balancing act between conservation and genetic improvement

A generalized machine-learning aided method for targeted identification of industrial enzymes from metagenome: a xylanase temperature dependence case study

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