LSE3rdyrbachelor–27thFebruary2017
Nanotomy,T1D,electronmicroscopy
Lecturer:BenN.G.Giepmans
Department:CellBiology,UMCG
Contact:www.cellbiology.nl
Nanotomy–T1D–EM
Assignment1:Electronmicroscopystructure/function
Acellcontainsorganellesthatareessentialforitsfunction.Dependingoncellularfunction,one
typeofcellwillhaveahighernumberofcertainorganellesthanothers.Tocheckifyouknowthe
variouscellorganelles,examinethefollowingschematicdrawingofacell(anexocrinecell).
a. Identifythevariouscellorganellesbyplacingtherightnumberattherightline
b. Statethemainfunction(s)oftheorganelleinthetable
Fig.1.Source:LaboratoryManualofHistology,Pappas.(W.C.Brown,1990)
Structure
Function
Structure
Function
1.centriole
9.microtubules
2.cytosol
10.mitochondria
3.Golgicomplex
11.microvilli
4.nucleus
12.nucleolus
5.nuclearenvelope 13.plasmamembrane
6.nuclearpore
14.ribosomes
7.lysosome
8.microfilaments
15. rough endoplasmic reticulum
16.secretiondrops
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Assignment2:Studyelectronmicroscopy
IntransmissionEM(TEM),ahighvoltagegeneratedbetweenaheated
cathode (filament) and an anode produces a beam of electrons. One or
more condenser lenses focus this beam onto the plane of focus of the
objective lenses, where an ultrathin specimen section has been placed.
The objective lenses create a magnified image of the object which is
shown on screen or captured by camera. A standard TEM provides
magnification of up to 300,000 times, with a resolution of ∼ 2 nm, of
specimensectionswhichare∼60nmthick,withamaximumdiameter
of3mm.
ThebiologicalmaterialpresentintheultrathinsectionmainlycomprisesC,H,NandOanddoes
not scatter electrons sufficiently to provide an image, which is why the specimen must be
stained with heavy metals, which do scatter electrons. The most common contrast medium is
osmiumtetroxide(OsO4),whichbindsparticularlyeasilytodoublebondsoflipids,fixingthem
bycreatingcross‐links,makingmembranesvisible.
In scanning EM (SEM), the electron
beam is focused by the condenser
and objective lenses in the same
manner as in TEM. The primary
electron beam is not stationary, like
in TEM, but scans the specimen line
for line, releasing secondary
electrons (SE2) in the sample or
having the electrons reflected
(backscatter electrons). These are
both used to create an image of the
specimen surface. If the specimen
sectionisultrathin,theelectronsmay
passthroughit.Byplacingadetectorunderneath,aTEMimagecanbetransformedintoanSEM
image.ThisisknownasSTEM:scanningtransmissionEM.
Background:EssentialCellBiology,Albertsetal.,(Garland,4thed.2013)page11.
*Assignments1‐2havebeenmodifiedfromDrs.D.Opstelten&N.A.Bos,ManualforCellBiology
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Assignment3:Fromtissuetomolecularcomplexes
Microscopyallowsstudyingsamplesatdifferentmagnifications.Figs.1showedamodel.Figure
2isahistologicaldepictionoftheisletsofLangerhans.Intheassignmentbelow,wewilllookata
sectionofasingleislet.
1.DrawascalebarInFigures1and2,indicatingtheestimateddimensions.Areyouabletogive
various‐sizedscalesinFig.2?Ifyoucannot,returntoitaftercompletingAssignment4.
Fig. 2. The beta cells grouped in the islets of
Langerhans in the pancreas. The rest of the
pancreas consists of exocrine tissue where
digestive enzymes are produced. The endocrine
tissue – the islets of Langerhans – produces other
hormonesbesidesinsulin.
Source:www.bu.edu/histology/p/10401loa.htm
Further reading: Functional Histology, Kerr (Mosby,
2nded.2009)p404‐407.
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Assignment4:Nanotomy:EMoftissues,
cells,organellesandmacromolecules
Nanotomy is an innovation in EM that allows to study tissues, cells, organelles and
macromolecules in Google‐Earth‐like fashion. The technique is detailed in this movie. Here,
nanotomy has been used in an animal model for Type 1 diabetes: Ravelli et al. (2013);
www.nature.com/srep/2013/130508/srep01804/full/srep01804.html.
Type 1 diabetes (T1D) is an auto‐immune disease resulting from degradation of the insulin‐
producingbetacells,whicharelocatedintheisletsofLangerhansinthepancreas(Fig.2).The
triggerisunknown,acuredoesnotexist,andpatientsdependonlifelonginsulintherapy.
Study ultrastructure. Go to www.nanotomy.org , select the Ravelli 2013 study (bottom) and
click on the largest islet (grey). This dataset can be studied in the same way you view a
landscapeinGoogleEarth.ClickontheIIPiconattopleftforextrainstructionsifnecessary.Go
through the annotations and answer the questions below. The numbers correspond to the
annotations:1Arefersto1,forexample.Ifyouplaceyourcursoron'Supracellular',forexample,
asubmenuwillappear,includingA,Islet.Beforeyoubegin,dragthemenuatbottomleftupa
bitandthescalewillappear.
1.IsletsofLangerhansinrecent‐onsettype1diabetes(rat)
Judge what the largest structure is that you can recognize. And if you zoom in, what is the
smallest?Whatarethedimensions?
Onceagain:Theannotationmenucanbedraggedtoallowthescaletoshow.
Largest:
Sizeisapproximately:
Smallest:
Sizeisapproximately:
1A.NametheclearestdifferenceswhichdistinguishtheisletsofLangerhansfromtheexocrine
pancreas.
Whatarethevariousfunctions?
1B.Whichcellisinthecapillary?
1C.Whichtwotypesofcelldoyourecognizeinthevein?Whatarethemostobviousdifferences?
1D.Thecentroacinarlumenbelongstothe:
a. endocrinepancreasandcontainsenzymes
b. endocrinepancreasandcontainshormones
c. exocrinepancreasandcontainsenzymes
d. exocrinepancreasandcontainshormones
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1E. Depicted here is a cross‐section of a bundle of unmyelinated axons. The bundle was
discovered more or less by chance: the electrons cause the axons to be slightly lighter. These
containroundtubulesandlight‐greyfilaments.Howmanyaxonsdoyouseehere?
1F.Insomeexocrinecellsthenucleusisnotvisible.Why?
2A. The exocrine cell contains a lot of rough ER for protein synthesis. The content will be
secretedwithcytoplasmicvesiclesandeventuallyendupinthe:
a. blood
b. digestivetract
2B.Thealphacellproducesglucagon,whichisvisibleinthedarkvesicles.Glucagonensuresthat
thebloodsugarlevels:
a. increase
b. decrease
2C. The depicted beta cell is in bad shape: the rat has diabetes. Later you will compare the
differences with a healthy rat. Do you recognize the various organelles? Only a few granules
withhormonesarevisible,inparticulartothebottomleftofthenucleus.Thecrystal‐likeshape
istypicalandisevenmorepronouncedinhumanbetacells.Whichhormoneisit?
2D.Somatostatin‐producingdeltacellsalsoformpartoftheislets,althoughtheycompriseonly
afewpercent.Wecandistinguishvariouscelltypesthankstothedifferentgranulestructures.
Howcanwedifferentiatebetweensomatostatingranulesandglucagonorinsulin?
2E. Is the centroacinar cell important for protein production, or the structure of the efferent
ducts?Howcanyouseethis?
2F.Theindicatedcell,knownasapericyte,separatesthehormone‐producing……….....pancreas
fromtheenzymeorproenzyme‐producing……………....pancreas.
2G.Inflammatorycellsarepresentbecausethereisanongoingimmuneresponsetotheisletsin
therat.Whattypeofleukocyteisvisiblehere?Howcanyouseethis?
2H.Whatistheapproximatesizeofthiserythrocyte?
2I.Whatistypicalofthenucleusofamonocyte?
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2J.Thisphagocyteis(a)passiveor(b)active,because:
2K. The granulocytes in the blood cell practical were spherical / round. These clearly are not.
Explainthedifference?
2L.Theleukocytehasblackspotsonit.Whatistheapproximatesizeofthese?Whatcouldthey
be?
2M. The small platelets clearly have a more heterogeneous content than the adjacent
erythrocytes.Howmanyplateletsarevisibleinthisvein?
3A.TheroughERisimportantamongotherthingsfor:
Theblackspotsmeasureapproximately...........nm.Theseare................ontheinside/outsideof
theroughER.
3B.Amitochondrioniseasilyrecognizedby:
3C.Thecellnucleuscontains:
Severaltypescanbedistinguishedandtheseare:
Withregardtofunction,thisreflectstheprocessthatwecall:
3D.TheGolgiapparatuscanbenano‐anatomicallydistinguishedfromtheERbecauseit:
TheGolgiapparatusisimportantforsuchthingsas:
4A.Zymogengranulescontainenzymesandproenzymesinthe.................cells.
4B.Insulinisproducedbythe…………...cells.
4C./4D./4E. Exosomes are secreted granules. Using the various stages, is it possible to form a
pictureofexosomerelease?Yes/No
Inwhatwaydoesexosomereleasedifferfromvesiclefusionin,forinstance,insulinsecretion?
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4F.Glucagonisproducedbythe……….....cells.
4G.Somatostatinisproducedbythe……………..cells.
5.Structure/functionofvesicles
5A.Densebodiesareknownassuchbecause:
5B.Lysosomesplayanimportantrolein:
5C.Whattypeofcellisthiswhichisswarmingwithcaveolae?
5D.Theseareaboutthesmallestvesiclesinexistence.Whatistheirdiameter?
5E.Andwhatisthediameterofthelipiddroplets?
5F.Whichtwocharacteristicsallowthistoberecognizedasanearlyendosome?
5G.Clathrin‐coatedpitsarecharacteristicallyinvolvedin(a)endocytosisor(b)exocytosis.
5H.Ifthemulti‐vesicularbodiesfusewiththeplasmamembrane,itisconceivable
that:
6A.Crystaearetypicalof:
6B.Whichatomisaccumulatedinthismembranousmass?
6C.Doyourecognizethecells?Thefenestraeenable:
6D.Thebasementmembranedepictedhereisbetweentwotypesofcells,whichare:
6E.Here,thebasementmembraneformspartofacomplexstructure.Thisisstillthediabeticrat.
Morphologicallyspeaking,bothcellscontainingnucleiclearlyappeartobeleukocytes.However,
theseareindifferentlocations.Theleukocyteontheleftisinthe....,whiletheotherclearlyis
not.Explainwhatmaybegoingon.
7. Macromolecules are just barely discernible at these image settings. There are certain
characteristicswhichallowthevariousmacromoleculestoberecognized.
7A. How many nuclear pores can you distinguish in the ENTIRE cross‐section of the nuclear
membrane?
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7B.Thisisthetipofthenucleuswherenuclearporescanalsobedistinguished.Howmanyare
there?
Basedon7A.and7B.,sketcha3Dreconstructionofasinglenuclearpore.
7C.Polysomescomprise:
7D.Sketchamodelofasinglepolysomewith5ribosomes.Ifpossible,indicatethe5’UTRand3
‘UTRandsketchadiagramofproproteins.
7E.Desmosomesarespecializedcell‐cellcontactpoints,whichinparticularareimportantfor
(a)tissuestrengthor(b)formingabarrier.
7F.Tightjunctionsarespecializedcell‐cellcontactpoints,whichinparticularareimportantfor
formingabarrier.Otherthanindesmosomes,thereisnomajorconcentrationofintermediate
filamentsonthecytoplasmicside.Whichbarrierhasbeencreatedhere?
7G./H.Collagenis(a)cytoplasmicor(b)extracellularandservesparticularlyto:
7I./7J.Centriolesareoftenfoundperinuclearlyandaremainlymadeupof:
7K.Everycellhasapairofcentrioles.Givearoughestimateofhowmanycentriolesshouldbe
visibleinthisdataset.Explain.
‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐endofpractical‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐‐
Interested in other organs, diseases, organisms, human? Check nanotomy.org !
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