Identification and in Silico Structural and Functional Analysis of a Trypsin-Like Protease from Shrimp Macrobrachium Carcinus
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A Chymotrypsin from the Digestive Tract of California Spiny Lobster, Panulirus Interruptus: Purification and Biochemical Characterization
A chymotrypsin from the Digestive Tract of California Spiny Lobster, Panulirus interruptus: Purification and Biochemical Characterization Betsaida Bibo-Verdugo, Liliana Rojo- Arreola, Maria A. Navarrete-del-Toro & Fernando García-Carreño Marine Biotechnology An International Journal Focusing on Marine Genomics, Molecular Biology and Biotechnology ISSN 1436-2228 Volume 17 Number 4 Mar Biotechnol (2015) 17:416-427 DOI 10.1007/s10126-015-9626-z 1 23 Your article is protected by copyright and all rights are held exclusively by Springer Science +Business Media New York. This e-offprint is for personal use only and shall not be self- archived in electronic repositories. If you wish to self-archive your article, please use the accepted manuscript version for posting on your own website. You may further deposit the accepted manuscript version in any repository, provided it is only made publicly available 12 months after official publication or later and provided acknowledgement is given to the original source of publication and a link is inserted to the published article on Springer's website. The link must be accompanied by the following text: "The final publication is available at link.springer.com”. 1 23 Author's personal copy Mar Biotechnol (2015) 17:416–427 DOI 10.1007/s10126-015-9626-z ORIGINAL ARTICLE A chymotrypsin from the Digestive Tract of California Spiny Lobster, Panulirus interruptus: Purification and Biochemical Characterization Betsaida Bibo-Verdugo1 & Liliana Rojo-Arreola1 & Maria A. Navarrete-del-Toro1 & Fernando García-Carreño1 Received: 13 August 2014 /Accepted: 31 January 2015 /Published online: 16 April 2015 # Springer Science+Business Media New York 2015 Abstract A chymotrypsin was purified from the gastric juice Introduction of California spiny lobster (Panulirus interrutpus), using pre- parative electrophoresis and affinity chromatography on aga- Proteolytic enzymes from the digestive system of crustacean rose-p-aminobenzamidine. -
Serine Proteases with Altered Sensitivity to Activity-Modulating
(19) & (11) EP 2 045 321 A2 (12) EUROPEAN PATENT APPLICATION (43) Date of publication: (51) Int Cl.: 08.04.2009 Bulletin 2009/15 C12N 9/00 (2006.01) C12N 15/00 (2006.01) C12Q 1/37 (2006.01) (21) Application number: 09150549.5 (22) Date of filing: 26.05.2006 (84) Designated Contracting States: • Haupts, Ulrich AT BE BG CH CY CZ DE DK EE ES FI FR GB GR 51519 Odenthal (DE) HU IE IS IT LI LT LU LV MC NL PL PT RO SE SI • Coco, Wayne SK TR 50737 Köln (DE) •Tebbe, Jan (30) Priority: 27.05.2005 EP 05104543 50733 Köln (DE) • Votsmeier, Christian (62) Document number(s) of the earlier application(s) in 50259 Pulheim (DE) accordance with Art. 76 EPC: • Scheidig, Andreas 06763303.2 / 1 883 696 50823 Köln (DE) (71) Applicant: Direvo Biotech AG (74) Representative: von Kreisler Selting Werner 50829 Köln (DE) Patentanwälte P.O. Box 10 22 41 (72) Inventors: 50462 Köln (DE) • Koltermann, André 82057 Icking (DE) Remarks: • Kettling, Ulrich This application was filed on 14-01-2009 as a 81477 München (DE) divisional application to the application mentioned under INID code 62. (54) Serine proteases with altered sensitivity to activity-modulating substances (57) The present invention provides variants of ser- screening of the library in the presence of one or several ine proteases of the S1 class with altered sensitivity to activity-modulating substances, selection of variants with one or more activity-modulating substances. A method altered sensitivity to one or several activity-modulating for the generation of such proteases is disclosed, com- substances and isolation of those polynucleotide se- prising the provision of a protease library encoding poly- quences that encode for the selected variants. -
Shrimp Farming in the Asia-Pacific: Environmental and Trade Issues and Regional Cooperation
Shrimp Farming in the Asia-Pacific: Environmental and Trade Issues and Regional Cooperation Recommended Citation J. Honculada Primavera, "Shrimp Farming in the Asia-Pacific: Environmental and Trade Issues and Regional Cooperation", trade and environment, September 25, 1994, https://nautilus.org/trade-an- -environment/shrimp-farming-in-the-asia-pacific-environmental-and-trade-issues-- nd-regional-cooperation-4/ J. Honculada Primavera Aquaculture Department Southeast Asian Fisheries Development Center Tigbauan, Iloilo, Philippines 5021 Tel 63-33-271009 Fax 63-33-271008 Presented at the Nautilus Institute Workshop on Trade and Environment in Asia-Pacific: Prospects for Regional Cooperation 23-25 September 1994 East-West Center, Honolulu Abstract Production of farmed shrimp has grown at the phenomenal rate of 20-30% per year in the last two decades. The leading shrimp producers are in the Asia-Pacific region while the major markets are in Japan, the U.S.A. and Europe. The dramatic failures of shrimp farms in Taiwan, Thailand, Indonesia and China within the last five years have raised concerns about the sustainability of shrimp aquaculture, in particular intensive farming. After a brief background on shrimp farming, this paper reviews its environmental impacts and recommends measures that can be undertaken on the farm, 1 country and regional levels to promote long-term sustainability of the industry. Among the environmental effects of shrimp culture are the loss of mangrove goods and services as a result of conversion, salinization of soil and water, discharge of effluents resulting in pollution of the pond system itself and receiving waters, and overuse or misuse of chemicals. Recommendations include the protection and restoration of mangrove habitats and wild shrimp stocks, management of pond effluents, regulation of chemical use and species introductions, and an integrated coastal area management approach. -
Effects of Environmental Stress on Shrimp Innate Immunity and White
Fish and Shellfish Immunology 84 (2019) 744–755 Contents lists available at ScienceDirect Fish and Shellfish Immunology journal homepage: www.elsevier.com/locate/fsi Full length article Effects of environmental stress on shrimp innate immunity and white spot syndrome virus infection T ∗ Yi-Hong Chenb,c, Jian-Guo Hea,b, a State Key Laboratory for Biocontrol, School of Life Sciences, Sun Yat-sen University, 135 Xingang Road West, Guangzhou, 510275, PR China b Key Laboratory of Marine Resources and Coastal Engineering in Guangdong Province/School of Marine Sciences, Sun Yat-sen University, 135 Xingang Road West, Guangzhou, 510275, PR China c Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, Guangdong Provincial Key Laboratory for Healthy and Safe Aquaculture, College of Life Science, South China Normal University, Guangzhou 510631, PR China ARTICLE INFO ABSTRACT Keywords: The shrimp aquaculture industry is plagued by disease. Due to the lack of deep understanding of the relationship Shrimp between innate immune mechanism and environmental adaptation mechanism, it is difficult to prevent and Environmental stress control the diseases of shrimp. The shrimp innate immune system has received much recent attention, and the Innate immunity functions of the humoral immune response and the cellular immune response have been preliminarily char- Unfolded protein response acterized. The role of environmental stress in shrimp disease has also been investigated recently, attempting to White spot syndrome virus clarify the interactions among the innate immune response, the environmental stress response, and disease. Both the innate immune response and the environmental stress response have a complex relationship with shrimp diseases. Although these systems are important safeguards, allowing shrimp to adapt to adverse environments and resist infection, some pathogens, such as white spot syndrome virus, hijack these host systems. -
(12) Patent Application Publication (10) Pub. No.: US 2006/0110747 A1 Ramseier Et Al
US 200601 10747A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2006/0110747 A1 Ramseier et al. (43) Pub. Date: May 25, 2006 (54) PROCESS FOR IMPROVED PROTEIN (60) Provisional application No. 60/591489, filed on Jul. EXPRESSION BY STRAIN ENGINEERING 26, 2004. (75) Inventors: Thomas M. Ramseier, Poway, CA Publication Classification (US); Hongfan Jin, San Diego, CA (51) Int. Cl. (US); Charles H. Squires, Poway, CA CI2O I/68 (2006.01) (US) GOIN 33/53 (2006.01) CI2N 15/74 (2006.01) Correspondence Address: (52) U.S. Cl. ................................ 435/6: 435/7.1; 435/471 KING & SPALDING LLP 118O PEACHTREE STREET (57) ABSTRACT ATLANTA, GA 30309 (US) This invention is a process for improving the production levels of recombinant proteins or peptides or improving the (73) Assignee: Dow Global Technologies Inc., Midland, level of active recombinant proteins or peptides expressed in MI (US) host cells. The invention is a process of comparing two genetic profiles of a cell that expresses a recombinant (21) Appl. No.: 11/189,375 protein and modifying the cell to change the expression of a gene product that is upregulated in response to the recom (22) Filed: Jul. 26, 2005 binant protein expression. The process can improve protein production or can improve protein quality, for example, by Related U.S. Application Data increasing solubility of a recombinant protein. Patent Application Publication May 25, 2006 Sheet 1 of 15 US 2006/0110747 A1 Figure 1 09 010909070£020\,0 10°0 Patent Application Publication May 25, 2006 Sheet 2 of 15 US 2006/0110747 A1 Figure 2 Ester sers Custer || || || || || HH-I-H 1 H4 s a cisiers TT closers | | | | | | Ya S T RXFO 1961. -
Machrobrachium Rosenbergii)
RESEARCH ARTICLE Biomolecular changes that occur in the antennal gland of the giant freshwater prawn (Machrobrachium rosenbergii) Utpal Bose1,2¤, Thanapong Kruangkum3,4, Tianfang Wang1, Min Zhao1, Tomer Ventura1, Shahida Akter Mitu1, Mark P. Hodson2,5, Paul N. Shaw5, Prasert Sobhon4,6, Scott F. Cummins1* 1 Genetic, Ecology and Physiology Centre, Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Maroochydore DC, Queensland, Australia, 2 Metabolomics Australia, a1111111111 Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, a1111111111 Queensland, Australia, 3 Department of Anatomy, Faculty of Science, Mahidol University, Bangkok, a1111111111 Thailand, 4 Center of Excellence for Shrimp Molecular Biology and Biotechnology (Centex Shrimp), Faculty a1111111111 of Science, Mahidol University, Bangkok, Thailand, 5 S chool of Pharmacy, The University of Queensland, a1111111111 Queensland, Australia, 6 Faculty of Allied Health Sciences, Burapha University, Chonburi, Thailand ¤ Current address: CSIRO Agriculture and Food, Queensland, Australia * [email protected] OPEN ACCESS Abstract Citation: Bose U, Kruangkum T, Wang T, Zhao M, Ventura T, Mitu SA, et al. (2017) Biomolecular In decapod crustaceans, the antennal gland (AnG) is a major primary source of externally changes that occur in the antennal gland of the giant freshwater prawn (Machrobrachium secreted biomolecules, and some may act as pheromones that play a major role in aquatic rosenbergii). PLoS ONE 12(6): e0177064. https:// animal communication. In aquatic crustaceans, sex pheromones regulate reproductive doi.org/10.1371/journal.pone.0177064 behaviours, yet they remain largely unidentified besides the N-acetylglucosamine-1,5-lac- Editor: Gao-Feng Qiu, Shanghai Ocean University, tone (NAGL) that stimulates male to female attraction. -
Sensory Systems and Feeding Behaviour of the Giant Freshwater Prawn, Macrobrachium Rosenbergii, and the Marine Whiteleg Shrimp, Litopenaeus Vannamei
Borneo Journal of Marine Science and Aquaculture Volume: 01 | December 2017, 80 - 91 Sensory systems and feeding behaviour of the giant freshwater prawn, Macrobrachium rosenbergii, and the marine whiteleg shrimp, Litopenaeus vannamei Gunzo Kawamura1*, Teodora Uy Bagarinao2 and Annita Seok Kian Yong1 1Borneo Marine Research Institute, Universiti Malaysia Sabah, 88400 Kota Kinabalu, Sabah, Malaysia 2Aquaculture Department, Southeast Asian Fisheries Development Center, Tigbauan, Iloilo, Philippines *Corresponding author: [email protected] Abstract Information on the sensory basis of shrimp feeding provides the means for assessment of the effectiveness of food items in terms of smell, taste, size, and colour. This chapter summarizes information about the sensory basis of the feeding behaviour of the giant freshwater prawn (Macrobrachium rosenbergii) and the marine whiteleg shrimp (Litopenaeus vannamei). Existing literature on these shrimp species and other decapod crustaceans is reviewed, and unpublished experiments using the selective sensory ablation technique to determine the involvement of vision, chemoreception, and touch sense in the feeding behavior of the juveniles of M. rosenbergii and L. vannamei are also described. To determine the role of vision in feeding, the eyes of the juveniles were painted over (deprived of vision) with white manicure and their feeding response to commercial pellets was compared with those with untreated eyes. The untreated eyed juveniles detected and approached a feed pellet right away, but the specimens blinded by the coating detected a pellet only after random accidental touch with the walking legs while roaming on the aquarium bottom. Juveniles that had learned to feed on pellets showed food search and manipulation responses to a pellet-like pebble without smell and taste. -
3Cda99c90f15b1ffaba68178fdbd
A new insight to biomarkers related to resistance in survived-white spot syndrome virus challenged giant tiger shrimp, Penaeus monodon Farhana Mohd Ghani1,* and Subha Bhassu1,2,* 1 Department of Genetics & Molecular Biology, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia 2 Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur, Malaysia * These authors contributed equally to this work. ABSTRACT The emergence of diseases such as white spot disease has become a threat to Penaeus monodon cultivation. Although there have been a few studies utilizing RNA-Seq, the cellular processes of host-virus interaction in this species remain mostly anonymous. In the present study, P. monodon was challenged with WSSV by intramuscular injection and survived for 12 days. The effect of the host gene expression by WSSV infection in the haemocytes,hepatopancreasandmuscleofP. monodonwasstudiedusingIlluminaHiSeq 2000. The RNA-Seq of cDNA libraries was developed from surviving WSSV-challenged shrimp as well as from normal healthy shrimp as control. A comparison of the transcriptome data of the two groups showed 2,644 host genes to be significantly up-regulatedand2,194genessignificantlydown-regulatedasaresultoftheinfectionwith WSSV. Among the differentially expressed genes, our study discovered HMGB, TNFSF andc-JuninP. monodonasnewpotentialcandidategenesforfurtherinvestigationforthe development of potential disease resistance markers. Our study also provided significant data on the differential expression of genes in the survived WSSV infected P. monodon that will help to improve understanding of host-virus interactions in this species. Submitted 18 February 2019 Accepted 27 October 2019 Published 20 December 2019 Subjects Aquaculture, Fisheries and Fish Science, Bioinformatics, Food Science and Technology, Corresponding author Genomics, Marine Biology Subha Bhassu, Keywords Novel discovery gene transcripts, Survived WSSV challenged shrimps, P. -
Downloading the Nucleotide Sequences and Scanning Them Against the Database
An in silico analysis, purification and partial kinetic characterisation of a serine protease from Gelidium pristoides A dissertation submitted in fulfilment of the requirement for the degree of Master of Science (MSc) Biochemistry by Zolani Ntsata Supervisor: Prof. Graeme Bradley 2020 Department of Biochemistry and Microbiology Declaration I, Zolani Ntsata (201106067), declare that this dissertation, entitled ‘An in silico analysis and kinetic characterisation of proteases from red algae’ submitted to the University of Fort Hare for the Master’s degree (Biochemistry) award, is my original work and has NOT been submitted to any other university. Signature: __________________ I, Zolani Ntsata (201106067), declare that I am highly cognisant of the University of Fort Hare policy on plagiarism and I have been careful to comply with these regulations. Furthermore, all the sources of information have been cited as indicated in the bibliography. Signature: __________________ I, Zolani Ntsata (201106067), declare that I am fully aware of the University of Fort Hare’s policy on research ethics, and I have taken every precaution to comply with these regulations. There was no need for ethical clearance. Signature: _________________ i Dedication I dedicate this work to my grandmother, Nyameka Mabi. ii Acknowledgements Above all things, I would like to give thanks to God for the opportunity to do this project and for the extraordinary strength to persevere in spite of the challenges that came along. I am thankful to my family, especially my grandmother, for her endless support. I would also like to acknowledge Prof Graeme Bradley for his supervision and guidance. Thanks to my friends and colleagues, especially Yanga Gogela and Ntombekhaya Nqumla, and the plant stress group for their help and support. -
The Role of Proteases in Plant Development
The Role of Proteases in Plant Development Maribel García-Lorenzo Department of Chemistry, Umeå University Umeå 2007 i Department of Chemistry Umeå University SE - 901 87 Umeå, Sweden Copyright © 2007 by Maribel García-Lorenzo ISBN: 978-91-7264-422-9 Printed in Sweden by VMC-KBC Umeå University, Umeå 2007 ii Organization Document name UMEÅ UNIVERSITY DOCTORAL DISSERTATION Department of Chemistry SE - 901 87 Umeå, Sweden Date of issue October 2007 Author Maribel García-Lorenzo Title The Role of Proteases in Plant Development. Abstract Proteases play key roles in plants, maintaining strict protein quality control and degrading specific sets of proteins in response to diverse environmental and developmental stimuli. Similarities and differences between the proteases expressed in different species may give valuable insights into their physiological roles and evolution. Systematic comparative analysis of the available sequenced genomes of two model organisms led to the identification of an increasing number of protease genes, giving insights about protein sequences that are conserved in the different species, and thus are likely to have common functions in them and the acquisition of new genes, elucidate issues concerning non-functionalization, neofunctionalization and subfunctionalization. The involvement of proteases in senescence and PCD was investigated. While PCD in woody tissues shows the importance of vacuole proteases in the process, the senescence in leaves demonstrate to be a slower and more ordered mechanism starting in the chloroplast where the proteases there localized become important. The light-harvesting complex of Photosystem II is very susceptible to protease attack during leaf senescence. We were able to show that a metallo-protease belonging to the FtsH family is involved on the process in vitro. -
Proteolytic Cleavage—Mechanisms, Function
Review Cite This: Chem. Rev. 2018, 118, 1137−1168 pubs.acs.org/CR Proteolytic CleavageMechanisms, Function, and “Omic” Approaches for a Near-Ubiquitous Posttranslational Modification Theo Klein,†,⊥ Ulrich Eckhard,†,§ Antoine Dufour,†,¶ Nestor Solis,† and Christopher M. Overall*,†,‡ † ‡ Life Sciences Institute, Department of Oral Biological and Medical Sciences, and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada ABSTRACT: Proteases enzymatically hydrolyze peptide bonds in substrate proteins, resulting in a widespread, irreversible posttranslational modification of the protein’s structure and biological function. Often regarded as a mere degradative mechanism in destruction of proteins or turnover in maintaining physiological homeostasis, recent research in the field of degradomics has led to the recognition of two main yet unexpected concepts. First, that targeted, limited proteolytic cleavage events by a wide repertoire of proteases are pivotal regulators of most, if not all, physiological and pathological processes. Second, an unexpected in vivo abundance of stable cleaved proteins revealed pervasive, functionally relevant protein processing in normal and diseased tissuefrom 40 to 70% of proteins also occur in vivo as distinct stable proteoforms with undocumented N- or C- termini, meaning these proteoforms are stable functional cleavage products, most with unknown functional implications. In this Review, we discuss the structural biology aspects and mechanisms -
Intrinsic Evolutionary Constraints on Protease Structure, Enzyme
Intrinsic evolutionary constraints on protease PNAS PLUS structure, enzyme acylation, and the identity of the catalytic triad Andrew R. Buller and Craig A. Townsend1 Departments of Biophysics and Chemistry, The Johns Hopkins University, Baltimore MD 21218 Edited by David Baker, University of Washington, Seattle, WA, and approved January 11, 2013 (received for review December 6, 2012) The study of proteolysis lies at the heart of our understanding of enzyme evolution remain unanswered. Because evolution oper- biocatalysis, enzyme evolution, and drug development. To un- ates through random forces, rationalizing why a particular out- derstand the degree of natural variation in protease active sites, come occurs is a difficult challenge. For example, the hydroxyl we systematically evaluated simple active site features from all nucleophile of a Ser protease was swapped for the thiol of Cys at serine, cysteine and threonine proteases of independent lineage. least twice in evolutionary history (9). However, there is not This convergent evolutionary analysis revealed several interre- a single example of Thr naturally substituting for Ser in the lated and previously unrecognized relationships. The reactive protease catalytic triad, despite its greater chemical similarity rotamer of the nucleophile determines which neighboring amide (9). Instead, the Thr proteases generate their N-terminal nu- can be used in the local oxyanion hole. Each rotamer–oxyanion cleophile through a posttranslational modification: cis-autopro- hole combination limits the location of the moiety facilitating pro- teolysis (10, 11). These facts constitute clear evidence that there ton transfer and, combined together, fixes the stereochemistry of is a strong selective pressure against Thr in the catalytic triad that catalysis.