Urine Proteomics in Kidney Disease Biomarker Discovery

202 Pages·2015·4.03 MB·English

by  Youhe Gao (eds.)

Advances in Experimental Medicine and Biology 845
Youhe Gao Editor
Urine
Proteomics in
Kidney Disease
Biomarker
Discovery
Advances in Experimental Medicine and Biology
Volume 845
Series editors
Irun R. Cohen, Rehovot, Israel
N.S. Abel Lajtha, Orangeburg, USA
Rodolfo Paoletti, Milan, Italy
John D. Lambris, Philadelphia, USA
More information about this series at http://www.springer.com/series/5584
Youhe Gao
Editor
Urine Proteomics in Kidney
Disease Biomarker
Discovery
123
Editor
YouheGao
Department of Pathophysiology
InstituteofBasicMedicalSciences(IBMS)
ChineseAcademy ofMedical Sciences
andPeking UnionMedical College
Beijing
China
ISSN 0065-2598 ISSN 2214-8019 (electronic)
ISBN 978-94-017-9522-7 ISBN 978-94-017-9523-4 (eBook)
DOI 10.1007/978-94-017-9523-4
LibraryofCongressControlNumber:2014954985
SpringerDordrechtHeidelbergNewYorkLondon
©SpringerScience+BusinessMediaDordrecht2015
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Preface
I never thought about writing or editing a book since it is boring and not very
useful. Until one day, Mandy from Springer came to my little shared office asking
meifIwantedtoeditabook.Myneighborlab,PIHongbingthoughtImighthave
somethingtowriteaboutandrecommendedmetoher.Itwasthetimewhenwehad
just developed in the lab a way to save urinary proteins on the membrane cheaply
and simply. It was named urimem. I was thinking about people who will all have
biologicalsamplesintheirmedicalrecord.Thismaypotentiallychangethegearfor
biomarkerdevelopment.Ifmedicalrecordscanchangethefaceofmedicine,adding
biological samples to the information already in the medical record would very
likely change the face of medicine again. My excitement did not last very long
whenIrealizedthatsavingurinemaynotbenecessaryforallpeople.Itmayonlybe
useful for urinary disease patients.
I sat in my cube wondering why people need this urimem in their medical
records.Inmymind,biomarkersweregeneratedinorgansandtraveledtotheblood
waiting for detection, then the blood was full of biomarkers and they jammed the
circulation. I realized that people cannot survive if the biomarkers stay in blood
forever. I recalled what I taught in angiogenesis class. Angiostatin needs to be
continuously infused to maintain the effective concentration in blood. The things
thatenterthebloodneedtoberemoved.Thebloodneedstobestable.Biomarkers
fromotherorgansneedtoberemovedtoo.Wherearetheysupposedtogo?Urineis
very likely. I started searching the Internet for teaching material on homeostasis.
From a PPT I am still showing around, it showed that in order to maintain the
homeostasis of internal environment, wastes were removed by kidney, liver, lung,
and skin. Urine is the most directly connected to blood, the cleanest, most acces-
sible, completely noninvasive body fluid.
Ifhumanbeingsweredesignedandcreated,urinewasprobablysetjustforusto
remove the wastes and check the status of our bodies.
The book as a form of publication is slow compared to papers, not to mention
meetingabstractsandpersonalblogs.Ifabookneedstobeeditedandpublished,it
hastobeusableforawhile,atleastforafewyears.Whatinformationisusefulfora
few years for researchers and students in the field? The most up-to-date
v
vi Preface
developmentinthefieldisnotthatdurable.Themostdurablethingsarethethings
thatneedtobeconsideredwhenpeoplewanttodesignanexperimentinthefield.I
believethatnobodyneeds abookof“thecurrentaffair.”Beforethebook isonthe
shelforevenonline,theinformationisnotup-to-dateanymore.Weneedabookof
“all things considered.” The chapters chosen to propose an idea need to be con-
sidered.Mostofthemarenotreviews.Someofthechaptersarealmostthereformat
of the paper.
Ihavebeenworkinginthefieldforanumberofyears.ButIknowIamnotwell
known,letalonefamous.Itishardtoeditabookwithoutsupportingparticipants.I
thankthoseauthorswhoagreedwithmeonthewaythisbookisorganized.Ithank
alltheauthorswhospenttheirtimetocontribute.Ithankallmyformerandcurrent
lab members who contributed to the book. I enjoyed working with you. I enjoyed
the weekly discussion at the lab meeting. I thank my collaborators Mingxi,
Zhihong, and Xiangmei for giving me the chance to work and discuss together. I
thankPengfromSpringerforgoingthroughthetediouseditingprocess.Ithankmy
colleagueXianda andChengyufor theirsupport.Ithankmyparentsforgivingme
life and freedom. I thank my wife and other family members who let me enjoy
science.
IknowthisbookisfarfromwhatIplannedandexpected.Lotsofrelatedtopics
are not covered because of my limited knowledge and ability, and because of the
availabilityofpotentialauthors.Ihopetherewillbemorepeopleparticipatingifwe
havethenexteditioninafewyears.Ibelieveinthisfield,whichhasthepotentialto
changethefaceofbiomarker,biobanking,biotechnology,andeventually,medicine
and health.
Urine smells good.
It tastes even better.
NJ, USA, July 2014
Contents
Part I Urine as Biomarker Source
1 Urine Is a Better Biomarker Source Than Blood Especially
for Kidney Diseases . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
Youhe Gao
2 Urine Reflection of Changes in Blood . . . . . . . . . . . . . . . . . . . . . 13
Menglin Li
Part II Urine Collection, Storage and Analysis
3 Urimem Facilitates Kidney Disease Biomarker Research . . . . . . . 23
Liu Liu, Lulu Jia and Xuejiao Liu
4 Human Urine Proteome: A Powerful Source
for Clinical Research . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Lili Zou and Wei Sun
5 Exosomes in Urine Biomarker Discovery. . . . . . . . . . . . . . . . . . . 43
Alyssa R. Huebner, Poorichaya Somparn, Thitima Benjachat,
Asada Leelahavanichkul, Yingyos Avihingsanon,
Robert A. Fenton and Trairak Pisitkun
6 Urinary Proteins with Post-translational Modifications. . . . . . . . . 59
Liu Liu and Xuejiao Liu
7 Applications of Peptide Retention Time in Proteomic
Data Analysis. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 67
Chen Shao
vii
viii Contents
8 Urine Sample Preparation in 96-well Filter Plates
to Characterize Inflammatory and Infectious Diseases
of the Urinary Tract. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 77
Yanbao Yu and Rembert Pieper
Part III Factors That Changes Urinary Proteome
9 Variations of Human Urinary Proteome . . . . . . . . . . . . . . . . . . . 91
Yong Chen
10 Evolution of the Urinary Proteome During Human
Renal Development and Maturation . . . . . . . . . . . . . . . . . . . . . . 95
Zi Wang and Mingxi Li
11 Hormone-Dependent Changes in Female Urinary Proteome . . . . . 103
Annalisa Castagna, Sarath Kiran Channavajjhala,
Francesca Pizzolo and Oliviero Olivieri
12 Effects of Exercise on the Urinary Proteome . . . . . . . . . . . . . . . . 121
Maxie Kohler, Wilhelm Schänzer and Mario Thevis
13 Effects of Diuretics on Urinary Proteins. . . . . . . . . . . . . . . . . . . . 133
Xundou Li
Part IV Discovery of Kidney Disease Biomarkers
14 Applications of Urinary Proteomics in Renal Disease
Research Using Animal Models. . . . . . . . . . . . . . . . . . . . . . . . . . 145
Yang Lv, Guangyan Cai and Xiangmei Chen
15 The Application of Urinary Proteomics for the Detection
of Biomarkers of Kidney Diseases . . . . . . . . . . . . . . . . . . . . . . . . 151
Song Jiang, Yu Wang and Zhihong Liu
16 Dynamic Changes of Urinary Proteins in Focal
Segmental Glomerulosclerosis Model. . . . . . . . . . . . . . . . . . . . . . 167
Mindi Zhao
17 Using Isolated Rat Kidney to Discover Kidney Origin
Biomarkers in Urine. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 175
Lulu Jia
Contents ix
18 Comparing Plasma and Urinary Proteomes to Understand
Kidney Function. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 187
Lulu Jia
19 Urinary Protein Biomarker Database: A Useful Tool
for Biomarker Discovery. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 195
Chen Shao