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FungalTraits:a user-friendly traits database of fungi and fungus-like stramenopiles

Fungal Diversity 2020年第2期105卷 I0001-I0016页

作者： Sergei Põlme Kessy Abarenkov RHenrik Nilsson Björn D.Lindahl Karina Engelbrecht Clemmensen Havard Kauserud Nhu Nguyen Rasmus Kjøller Scott T.Bates Petr Baldrian Tobias Guldberg Frøslev Kristjan Adojaan Alfredo Vizzini Ave Suija Donald Pfister Hans-Otto Baral Helle Järv Hugo Madrid Jenni Nordén Jian-Kui Liu Julia Pawlowska Kadri Põldmaa Kadri Pärtel Kadri Runnel Karen Hansen Karl-Henrik Larsson Kevin David Hyde Marcelo Sandoval-denis Matthew E.Smith Merje Toome-Heller Nalin N.Wijayawardene Nelson Menolli Jr Nicole K.Reynolds Rein Drenkhan Sajeewa S.N.Maharachchikumbura Tatiana B.Gibertoni Thomas Læssøe William Davis Yuri Tokarev Adriana Corrales Adriene Mayra Soares Ahto Agan Alexandre Reis Machado Andrés Argüelles-Moyao Andrew detheridge Angelina de Meiras-Ottoni Annemieke Verbeken Arun Kumar Dutta Bao-Kai Cui C.K.Pradeep César Marín Daniel Stanton Daniyal Gohar Dhanushka N.Wanasinghe Eveli Otsing Farzad Aslani Gareth W.Griffith Thorsten H.Lumbsch Hans-Peter Grossart Hossein Masigol Ina Timling Inga Hiiesalu Jane Oja John Y.Kupagme József Geml Julieta Alvarez-Manjarrez Kai Ilves Kaire Loit Kalev Adamson Kazuhide Nara Kati Küngas Keilor Rojas-Jimenez Krišs Bitenieks Laszlo Irinyi LászlóGNagy Liina Soonvald Li-Wei Zhou Lysett Wagner M.Catherine Aime MaarjaÖpik María Isabel Mujica Martin Metsoja Martin Ryberg Martti Vasar Masao Murata Matthew PNelsen Michelle Cleary Milan C.Samarakoon Mingkwan Doilom Mohammad Bahram Niloufar Hagh-Doust Olesya Dulya Peter Johnston Petr Kohout Qian Chen Qing Tian Rajasree Nandi Rasekh Amiri Rekhani Hansika Perera Renata dos Santos Chikowski Renato L.Mendes-Alvarenga Roberto Garibay-Orijel Robin Gielen Rungtiwa Phookamsak Ruvishika S.Jayawardena Saleh Rahimlou Samantha C.Karunarathna Saowaluck Tibpromma Shawn P.Brown Siim-Kaarel Sepp Sunil Mundra Zhu-Hua Luo Tanay Bose Tanel Vahter Tarquin Netherway Teng Yang Tom May Torda Varga Wei Li Victor Rafael Matos Coimbra Virton Rodrigo Targino de Oliveira vitor xavier de lima Vladimir S.Mikryukov Yongzhong Lu Yosuke Matsuda Yumiko Miyamoto Urm Institute of Ecology and Earth Sciences University of Tartu14A Ravila50411 TartuEstonia Natural History Museum University of Tartu46 Vanemuise Str51003 TartuEstonia Gothenburg Global Biodiversity Centre Box 46140530 GothenburgSweden department of Biological and Environmental Sciences University of GothenburgGothenburgSweden department of Soil and Environment Swedish University of Agricultural SciencesBox 701475007 UppsalaSweden department of Forest Mycology and Plant Pathology Swedish University of Agricultural SciencesBox 702675007 UppsalaSweden Section for Genetics and Evolutionary Biology(EvoGene) Department of BiosciencesUniversity of OsloP.O.Box 1066BlindernNO-0316 OsloNorway University of Hawaiʻi at Mānoa 3190 Maile WaySt.John 102HonoluluHIUSA department of Biology University of CopenhagenUniversitetsparken 152100 CopenhagenØDenmark Purdue University Northwest WestvilleIN 46391USA Institute of Microbiology Czech Academy of SciencesVidenska 108314220 Praha 4Czech Republic GLOBE Institute University of CopenhagenØster Farimagsgade 5KH7.2.321353 CopenhagenDenmark Dipartimento di Scienze della Vita e Biologia dei Sistemi Universitàdi TorinoViale Mattioli 2510125 TorinoItaly department of Organismic and Evolutionary Biology and Farlow Library and Herbarium Harvard University22 Divinity AveCambridgeMA 02138USA Blaihofstr.42 72074 TübingenGermany SYNLAB Estonia Veerenni 53aTallinn 11313Estonia Escuela de Tecnología Médica Universidad Santo TomásLos Carreras 753OsornoChile Centro de Genómica y Bioinformática Universidad MayorCamino La Pirámide 5750HuechurabaSantiagoChile Norwegian Institute for Nature Research(NINA) Sognsveien 680855 OsloNorway School of Life Science and Technology University of Electronic Science and Technology of ChinaChengdu 611731People’s Republic of China Evolutionary Biology Faculty of BiologyBiological and Chemical Research CentreUniversity of Warsawul.Zwirki i Wigury 10102-089 WarsawPoland department of Botany Swedish Museum of

The cryptic lifestyle of most fungi necessitates molecular identification of the guild in environmental *** the past decades,rapid development and affordability of molecular tools have tremendously improved insights of the fungal diversity in all ecosystems and ***,in spite of the progress of molecular methods,knowledge about functional properties of the fungal taxa is vague and interpretation of environmental studies in an ecologically meaningful manner remains *** order to facilitate functional assignments and ecological interpretation of environmental studies we introduce a user friendly traits and character database FungalTraits operating at genus and species hypothesis *** the information from previous efforts such as FUNGuild and FunFun together with involvement of expert knowledge,we reannotated 10,210 and 151 fungal and Stramenopila genera,*** resulted in a stand-alone spreadsheet dataset covering 17 lifestyle related traits of fungal and Stramenopila genera,designed for rapid functional assignments of environmental *** order to assign the trait states to fungal species hypotheses,the scientific community of experts manually categorised and assigned available trait information to 697,413 fungal ITS *** the basis of those sequences we were able to summarise trait and host information into 92,623 fungal species hypotheses at 1%dissimilarity threshold.

关键词： Fungal traits Trophic modes Function Guild Bioinformatics High-throughput sequencing Community ecology

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Seasonal variation and host sex affect bat–bat fly interaction networks in the Amazonian savannahs

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Integrative Zoology 2024年第3期19卷 400-416页

作者： Paulo MEJIA Gustavo lima URBIETA Bruna da Silva xavier IsaíJorge de CASTRO JoséJúlio de TOLEDO Gustavo GRACIOLLI Lucio AndréVIANA DIAS William Douglas CARVALHO Programa de Pós-Graduação em Biodiversidade Tropical Universidade Federal do Amapá(UNIFAP)MacapáAPBrazil Programa de Pós-Graduação em Ecologia Instituto de BiologiaCentro de Ciências da SaúdeUniversidade Federal do Rio de Janeiro(UFRJ)Rio de JaneiroRJBrazil Laboratório de Mamíferos Instituto de Pesquisas Científicas e Tecnológicas do Estado do Amapá(IEPA)MacapáAPBrazil Programa de Pós-Graduação em Biologia Animal Laboratório de SistemáticaEcologia e Evolução(LSEE)Instituto de BiociênciasUniversidade Federal de Mato Grosso do Sul(UFMS)Campo GrandeMTBrazil Terrestrial Ecology Group(TEG-UAM) Departamento de EcologíaFacultad de CienciasUniversidad Autónoma de MadridMadridSpain Centro de Investigación en Biodiversidad y Cambio Global(CIBC-UAM) Universidad Autónoma de MadridMadridSpain

Bats are the second-most diverse group of mammals in the world,and bat flies are their main ***,significant knowledge gaps remain regarding these antagonistic interactions,especially since diverse factors such as seasonality and host sex can affect their network ***,we explore the influence of such factors by comparing species richness and composition of bat flies on host bats,as well as specialization and modularity of bat–bat fly interaction networks between seasons and adult host *** captured bats and collected their ectoparasitic flies at 10 sampling sites in the savannahs of AmapáState,northeastern region of the Brazilian *** female bats being more parasitized and recording greater bat fly species richness in the wet season,neither relationship was statistically *** pooled network could be divided into 15 compartments with 54 links,and all subnetworks comprised>12 *** total number of links ranged from 27 to 48(for the dry and wet seasons,respectively),and female and male subnetworks had 44 and 41 links,*** values were very low for the pooled network and for all *** results revealed higher bat fly species richness and abundance in the wet season,whereas specialization and modularity were higher in the dry ***,the subnetwork for female bats displayed higher specialization and modularity than the male ***,both seasonality and host sex contribute in different ways to bat–bat fly network *** studies should consider these factors when evaluating bat–bat fly interaction networks.

关键词： Amapá Amazon biome bat flies bats interaction networks

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King's College criteria and the Clichy-Villejuif criteria require adjustments for assessing acute liver failure due to yellow fever

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World Journal of Transplantation 2025年第1期15卷 124-134页

作者： Bruno da Silva Athanasio Antonio Marcio de Faria Andrade Vivian Vasconcelos Costa Juliano Felix Castro Silverio Leonardo Macedo Garcia Mauro Martins Teixeira Daniele da Gloria Souza Paula Vieira Teixeira Vidigal Cristiano xavier lima department of Surgery Federal University of Minas GeraisBelo Horizonte 30130-100Minas GeraisBrazil Liver Transplantation Unit Felicio Rocho HospitalBelo Horizonte 30110-934Minas GeraisBrazil department of Morphology Federal University of Minas GeraisBelo Horizonte 31270-901Minas GeraisBrazil department of Biochemistry and Immunology Federal University of Minas GeraisBelo Horizonte 31270-901Minas GeraisBrazil department of Pathology Federal University of Minas GeraisBelo Horizonte 30130-100Minas GeraisBrazil

BACKGROUND Acute liver failure(ALF)is a severe condition characterized by rapid deterioration of liver function in individuals without preexisting liver *** transplantation(LT)is the most impactful *** fever(YF)is an infectious disease that primarily affects the liver and has a high mortality ***,LT can be a viable option for treating rare cases with extensive liver ***,the criteria for assessing the severity of ALF and determining the indications for transplantation have not been specifically validated for cases caused by *** To present necessary adjustments to established scoring systems for ALF secondary to *** This was an observational,retrospective,single-center *** consecutive patients with confirmed ALF due to YF were monitored in the intensive care unit by a specialized liver transplant team during a three-month epidemic outbreak in *** hospitalization,general supportive therapeutic measures were implemented,and the patients were regularly assessed using the King's College criteria and the Clichy-Villejuif criteria to determine the severity of liver *** is considered a viable measure for patients with signs of end-stage liver *** Eight of 14(57%)patients developed severe neurological alterations within the first 96 hours after hospital *** patients underwent emergency LT,and despite a moderate viral infection of the graft after transplantation,the 5-year survival rate was 50%.Although the King's College criteria and the Clichy-Villejuif criteria are the main scoring systems for ALF,they are insufficient for predicting the risk of mortality in this context,primarily because of low serum bilirubin levels in the final stage of the disease and significant disparities between coagulation abnormalities and patient *** To ensure good applicability in cases of YF-induced ALF,the authors suggest adaptations to the King's College and Clichy-Vill

关键词： Yellow fever Acute liver failure Liver transplantation King's College criteria Clichy-Villejuif criteria

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Sagittal abdominal diameter as a marker of visceral obesity in older primary care patients

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Journal of Geriatric Cardiology 2020年第5期17卷 279-283页

作者： Maria Auxiliadora Nogueira Saad Antonio José Lagoeiro Jorge Diane xavier deávila Wolney de Andrade Martins Márcia Maria Sales dos Santos Luciana Thurler Tedeschi Ismar lima Cavalcanti Maria Luiza Garcia Rosa Rubens Antunes da Cruz Filho Fluminense Federal University NiteróiRio de Janeiro StateBrazil

Background Longevity,combined with a higher prevalence of obesity,particularly visceral obesity,has been associated with an increased risk of cardiovascular *** resistance(IR)is an important link between visceral obesity and cardiovascular *** important association has been found between sagittal abdominal diameter,visceral obesity and *** objective of this study is to evaluate sagittal abdominal diameter as a marker of visceral obesity and correlate it with IR in older primary health care *** A cross-sectional study was performed with 389 patients over 60 years of age(70.6±6.9),of whom 74%were *** clinical,anthropometric and metabolic profiles were assessed and their fasting serum insulin level was used to calculate the homeostasis model assessment insulin resistance(HOMA-IR).Sagittal abdominal diameter was measured in the supine position at the midpoint between the iliac crest and the last rib with abdominal *** Sagittal abdominal diameter was significantly correlated with anthropometric measures of general and visceral obesity and with HOMA-IR in both *** was no change in the association between sagittal abdominal diameter and HOMA-IR after adjusting for age,sex,diabetes and *** It is feasible to use sagittal abdominal diameter in older primary care patients as a tool to evaluate visceral obesity,which is an indicator of cardiovascular risk.

关键词： Cardiovascular risk Insulin resistance Primary health care Sagittal abdominal diameter

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Alpha-1 antitrypsin deficiency and Pi^(*)Z allele as important co-factors in the development of liver fibrosis

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World Journal of Hepatology 2024年第8期16卷 1099-1110页

作者： Ana Isabel Ferreira Catarina Guimarães vitor Macedo Silva Sofia xavier Joana Magalhães JoséCotter department of Gastroenterology Hospital da Senhora da Oliveira-GuimarãesGuimarães 4835-044Portugal Life and Health Sciences Research Institute School of MedicineUniversity of MinhoBraga 4710-057Portugal Life and Health Sciences Research Institute/3B’s PT Government Associate LaboratoryBraga 4710-057Portugal department of Pulmonology Hospital Senhora da Oliveira-GuimarãesGuimarães 4835-044Portugal

BACKGROUND Alpha-1 antitrypsin deficiency(AATD)is a codominant autosomal hereditary condition that predisposes patients to the development of lung and/or liver disease,and Pi*Z allele is the most clinically relevant *** To evaluate the impact of clinical parameters and AATD phenotypes,particularly the Pi*Z allele,in liver *** Cross-sectional cohort study including consecutive patients with AATD followed in Pulmonology or Hepatology *** Included 69 patients,49.3%had Pi*MZ phenotype and 10.1%Pi**** age≥55 years,age at diagnosis≥41 years and AAT at diagnosisder the curve(AUC)=0.840,Pdex of moderate to advanced fibrosis(AUC=0.831,Pded an age≥50 years,age at diagnosis≥41 years,metabolic risk factors,regular alcohol consumption,at least one Pi*Z allele,and AAT value at diagnosis<77 mg/*** created an algorithm for liver disease screening in AATD patients to use in primary care,selecting those to be referred to Hepatology consultation.

关键词： Alpha-1 antitrypsin deficiency Liver fibrosis Nonalcoholic fatty liver disease fibrosis score Fibrosis-4 index Liver stiffness measurement

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Beverage composed of fruits and soy:Microbiology,colorimetry and effects of refrigerated storage on physical-chemical parameters

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Food Bioscience 2022年第5期49卷 1084-1089页

作者： Bruno Fonsˆeca Feitosa Emanuel Neto Alves de Oliveira Francisco Bruno Ferreira de Freitas Juvˆencio Oleg´ario de Oliveira Neto Regilane Marques Feitosa Thamirys Lorranne Santos lima Maria Lucimar da Silva Medeiros Jo˜ao vitor Fonseca Feitoza Henrique D.M.Coutinho State University of Campinas Faculty of Food EngineeringCampinasSP13083-970Brazil Federal Institute of Education Science and Technology of Rio Grande do Norte(IFRN)Pau dos Ferros Campus Pau dos FerrosRio Grande do Norte59900-000Brazil Federal University of Campina Grande Campus Pombal-PB58840-000Brazil Federal Institute of Education Science and Technology of Alagoas57625-000Brazil Federal Institute of Education Science and Technology of Rio Grande do Norte(IFRN)Campus Pau dos FerrosRio Grande do Norte59900-000Brazil Federal Institute of Education Science and Technology of Rio Grande do Norte(IFRN)Campus Currais NovosRio Grande do Norte59380-000Brazil Federal University of Cear´a Center for Agrarian SciencesFortalezaCE59700000Brazil department of Biological Chemistry Regional University of Cariri-URCA63105-000CratoCEBrazil

The study aimed to develop beverages composed of fruits and soy extract,to evaluate the microbiology,colorimetry and the effects of refrigerated storage(4±2℃)on the physicochemical *** concentrate(50,55,60,65,70,75 and 80%)and myrtle pulp(30,25,20,15,10,5 and 0%)were used for the preparation of seven beverage formulations composed in different proportions,added with inulin and sweetened with honey *** analyzes were performed after processing and physicochemical stability was determined every 4 days for 8 *** beverages composed showed adequate microbiological quality after *** partial replacement of myrtle pulp by mango concentrate influenced mainly the colorimetric parameters,as well as pH,total acidity,total soluble solids and TSS/TTA *** beverages with greater stability were those made with 50 and 55%mango and 30 and 25%myrtle,respectively,both with 13%soy *** is inferred that the development of beverage composed of fruits and soy for specific emerging audiences may be viable,and complementary analyzes and a longer storage period are recommended for more stable beverages.

关键词： Eugenia gracillima Kiaersk Glycine max Mangifera indica L Mixed juice Stability study

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Challenges in the chemotherapy of Chagas disease: Looking for possibilities related to the differences and similarities between the parasite and host

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World Journal of Biological Chemistry 2017年第1期8卷 57-80页

作者： vitor Sueth-Santiago debora decote-Ricardo Alexandre Morrot Celio Geraldo Freire-de-lima Marco Edilson Freire lima Instituto Federal de Educacao Ciência e Tecnologia do Rio de JaneiroCampus Sao Goncalo Universidade Federal Rural do Rio de Janeiro Instituto de Ciências ExatasDepartamento de Química Universidade Federal Rural do Rio de Janeiro Instituto de VeterináriaDepartamento de Microbiologia e Imunologia Veterinária Universidade Federal do Rio de Janeiro

Almost 110 years after the first studies by Dr. Carlos Chagas describing an infectious disease that was named for him, Chagas disease remains a neglected illness and a death sentence for infected people in poor countries. This short review highlights the enormous need for new studies aimed at the development of novel and more specific drugs to treat chagasic patients. The primary tool for facing this challenge is deep knowledge about the similarities and differences between the parasite and its human host.

关键词： Trypanosoma cruzi Trans-sialidase Trypanothione reductase CYP51 Cruzipain Tubulin

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N-Acetyltransferase 2 genetic polymorphisms and risk of colorectal cancer

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World Journal of Gastroenterology 2011年第6期17卷 760-765页

作者： Tiago Donizetti da Silva Aledson vitor Felipe Jacqueline Miranda de lima Celina Tizuko Fujiyama Oshima Nora Manoukian Forones Oncology Group Gastroenterology Division Universidade Federal de So Paulo Pathology department Universidade Federal de So Paulo

AIM:To investigate the possible association between meat intake,cigarette smoking and N-acetyltransferase 2 (NAT2) genetic polymorphisms on colorectal cancer (CRC) ***:Patients with CRC were matched for gender and age to healthy *** intake and cigarette smoking were assessed using a specific frequency *** was extracted from peripheral blood and the genotypes of the polymorphism were assessed by polymerase chain reaction-restriction fragment length *** NAT2 alleles were studied (WT,M1,M2,M3 and M4) using specific digestion ***:A total of 147 patients with colorectal cancer (76 women and 90 men with colon cancer) and 212 controls were *** mean age of the two groups was 62 *** than half the subjects (59.8% in the case group and 51.9% in the control group) were NAT2 slow *** odds ratio for colorectal cancer was 1.38 (95% CI:0.90-2.12) in slow *** the number of women was small (n=76 in the case group),the cancer risk was found to be lower in intermediate (W/Mx) acetylators [odds ratio (OR):0.55,95% confidence interval (95% CI):0.29-1.02].This difference was not observed in men (OR:0.56,95% CI:0.16-2.00).Among NAT2 fast acetylators (W/W or W/Mx),meat consumption more than 3 times a week increased the risk of colorectal cancer (OR:2.05,95% CI:1.01-4.16).In contrast,cigarette smoking increased the risk of CRC among slow acetylators (OR:1.97,95% CI:1.02-3.79).CONCLUSION:The risk of CRC was higher among fast acetylators who reported a higher meat *** NAT2 acetylation was associated with an increased risk of CRC.

关键词： N-acetyltransferase 2 Polymorphism Colorectal cancer

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Microstructure features and mechanical/electrochemical behavior of directionally solidified Al−6wt.%Cu−5wt.%Ni alloy

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Transactions of Nonferrous Metals Society of China 2021年第6期31卷 1529-1549页

作者： Adilson vitor RODRIGUES Thiago Soares lima Talita Almeida VIDA Crystopher BRITO Amauri GARCIA Noé CHEUNG department of Manufacturing and Materials Engineering University of Campinas-UNICAMPCampinasSP13083-860Brazil Federal Institute of Education Science and Technology of São Paulo-IFSPBragança PaulistaSP12903-600Brazil São Paulo State University-UNESP Campus of São João da Boa VistaSão João da Boa VistaSP13876-750Brazil

The effects of the addition of 5.0 wt.%Ni to an Al−6wt.%Cu alloy on the solidification cooling rate(T),growth rate(V_(L)),length scale of the representative phase of the microstructure,morphology/distribution of intermetallic compounds(IMCs)and on the resulting properties were *** and tensile properties were determined on samples solidified under a wide range of T along the length of a directionally solidified Al−6wt.%Cu−5.0wt.%Ni alloy *** growth laws were derived relating the evolution of primary(λ_(1))and secondary(λ_(2))dendritic spacings with T and V_(L).The elongation to fracture(δ)and the ultimate tensile strength(σ_(U))were correlated with the inverse of the square root of λ_(1) along the length of the casting by Hall−Petch type experimental *** reinforcing effect provided by the addition of Ni in the alloy composition is shown to surpass that provided by the refinement of the dendritic *** highest corrosion resistance is associated with a microstructure formed by thin IMCs evenly distributed in the interdendritic regions,typical of samples that are solidified under higher T.

关键词： Al−Cu−Ni alloys as-cast microstructures dendritic spacings tensile properties corrosion resistance

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Spectroscopic Multicomponent Analysis Using Multi-objective Optimization for Variable Selection

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Computer Technology and Application 2013年第9期4卷 466-475页

作者： Anderson da Silva Soares Telma Woerle de lima Daniel vitor de LuPcena Rogerio Lopes Salvini GustavoTeodoro Laureano Clarimar Jose Coelho Institute of lnformatics Federal University of Goifs Goidnia 74001970 Brazil Computer Science department Pontifical University Catholic of Goicas Goiania 74605-010 Brazil

The multiple determination tasks of chemical properties are a classical problem in analytical chemistry. The major problem is concerned in to find the best subset of variables that better represents the compounds. These variables are obtained by a spectrophotometer device. This device measures hundreds of correlated variables related with physicocbemical properties and that can be used to estimate the component of interest. The problem is the selection of a subset of informative and uncorrelated variables that help the minimization of prediction error. Classical algorithms select a subset of variables for each compound considered. In this work we propose the use of the SPEA-II （strength Pareto evolutionary algorithm II）. We would like to show that the variable selection algorithm can selected just one subset used for multiple determinations using multiple linear regressions. For the case study is used wheat data obtained by NIR （near-infrared spectroscopy） spectrometry where the objective is the determination of a variable subgroup with information about E protein content （%）, test weight （Kg/HI）, WKT （wheat kernel texture）（%） and farinograph water absorption （%）. The results of traditional techniques of multivariate calibration as the SPA （successive projections algorithm）, PLS （partial least square） and mono-objective genetic algorithm are presents for comparisons. For NIR spectral analysis of protein concentration on wheat, the number of variables selected from 775 spectral variables was reduced for just 10 in the SPEA-II algorithm. The prediction error decreased from 0.2 in the classical methods to 0.09 in proposed approach, a reduction of 37%. The model using variables selected by SPEA-II had better prediction performance than classical algorithms and full-spectrum partial least-squares.

关键词： Multi-objective algorithms variable selection linear regression.

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