Jou nal o
Clinical Medicine
Re iew
Molecula and Me abolic Sub ypes Co espondence
o Panc ea ic Duc al Adenoca cinoma Classi ica ion
Pila Espiau-Rome a , Sa ah Cou ois, Bea iz Pa ejo-Alonso and Pa icia Sancho *
T ansla ional Resea ch Uni , Hospi al Uni e si a io Miguel Se e , IIS A agon, 50009 Za agoza, Spain;
[email p o ec ed] (P.E.-R.); [email p o ec ed] (S.C.); [email p o ec ed] (B.P.-A.)
*Co espondence: [email p o ec ed]
Recei ed: 14 Oc obe 2020; Accep ed: 17 Decembe 2020; Published: 21 Decembe 2020
Abs ac :
Panc ea ic duc al adenoca cinoma (PDAC), he mos common o m o panc ea ic cance ,
is an ex emely le hal disease due o la e diagnosis, agg essi eness and lack o e ec i e he apies.
Conside ing i s in insic he e ogenei y, pa ien s a i ica ion models based on ansc ip omic and genomic
signa u es, wi h pa ially o e lapping subg oups, ha e been es ablished. Besides molecula al e a ions,
PDAC umou s show a s ong desmoplas ic esponse, esul ing in p o ound me abolic ep og amming
in ol ing inc eased glucose and amino acid consump ion, as well as lipid sca enging and biosyn hesis.
In e es ingly, ecen wo ks ha e also e ealed he exis ence o me abolic sub ypes wi h di e en ial
p ognosis wi hin PDAC, which co ela ed o de ined molecula subclasses in pa ien s: lipogenic sub ype
co ela ed wi h a classical/p ogeni o signa u e, while glycoly ic umou s associa ed wi h he highly
agg essi e basal/squamous p o ile. Bioin o ma ic analyses ha e demons a ed ha he ep esen a i e
genes o each me abolic sub ype a e up- egula ed in PDAC samples and p edic pa ien su i al.
This sugges s a ela ionship be ween he gene ic signa u e, me abolic p o ile, and agg essi eness o he
umou . Conside ing all his, de ining me abolic sub ypes ep esen s a clea oppo uni y o pa ien
s a i ica ion conside ing umou unc ional beha iou independen ly o hei mu a ional backg ound.
Keywo ds: PDAC; panc ea ic cance ; glycolysis; lipid me abolism; classi ica ion; s a i ica ion
1. In oduc ion
Panc ea ic duc al adenoca cinoma (PDAC) is conside ed one o he mos agg essi e solid
malignancies. I ep esen s he hi d cause o cance - ela ed dea hs in indus ialised coun ies oday [
1
]
and i is p edic ed o become he second by 2030 [
2
]. Despi e p og ess in he unde s anding o he
molecula and gene ic basis o his disease, i e-yea su i al a es ha e emained below 10% a e
diagnosis and one-yea su i al occu s in only 28% o cases [3].
The easons o he poo p ognosis o his disease include bad accessibili y o he o gan, absence o
dis inc symp omsandhigh a eo me as asis, occu inginabou 50%o pa ien s[
4
].
On he o he hand,
he e a e no eliable bioma ke s app o ed o ea ly diagnosis [5].
Cu en ly, he only a ailable cu a i e op ion o PDAC pa ien s is su gical esec ion ollowed by
adju an chemo he apy [
4
]. Howe e , his occu s in a mino i y o pa ien s, since 80–90% o hem a e
diagnosed wi h ad anced disease when he umou is no esec able [
6
,
7
]. In addi ion, he he e ogenei y
andplas ici yo PDAC umou slead ochemo esis ance[
8
]. In ac , se e alphaseIII ials o chemo he apy
agen s o a ge ed he apies e ec i e in o he malignancies ha e ailed o bene i unselec ed PDAC
popula ions. In addi ion, wi h he excep ion o he a e subse o misma ch epai -de icien umou s,
checkpoin inhibi o s ha e ailed o show e icacy in me as a ic pa ien s.
Unde such ci cums ances, he solu ion possibly lies in ea ly de ec ion and p ope classi ica ion
o pa ien s [
4
]. Pa ien s a i ica ion has become an in aluable ool o he clinical managemen o
cance pa ien s, p o iding diagnos ic and p ognos ic in o ma ion and, c ucially, guiding he apeu ic
J. Clin. Med. 2020,9, 4128; doi:10.3390/jcm9124128 www.mdpi.com/jou nal/jcm
J. Clin. Med. 2020,9, 4128 2 o 21
decisions, especially when a ge ed he apies o a speci ic mu a ion o subg oup a e a ailable.
In ac , s a i ica ion had a key ole imp o ing su i al a es in diseases such as b eas cance .
Howe e , pa ien s a i ica ion based on his omo phological o molecula ea u es in PDAC has p o ed
challenging, se e ely delaying he iden i ica ion o such a ge ed he apies. This, oge he wi h he
und uggable na u e o mu a ed K-RAS (al hough clinical ials a e unde way o inhibi he mu a ion
K-RAS
G12C
), limi s PDAC ea men o ine ec i e con en ional chemo he apy. Genomic s udies ha e
e ealed sub ypes o PDAC based on hei molecula ea u es, bu di e se s udies ha e epo ed
di e en classi ica ion sys ems incomple ely o e lapping. In e es ingly, inc easing e o s a e being
made in di e en di ec ions. In ac , ecen da a sugges ha PDAC umou s could also be classi ied
a ending o hei me abolic pheno ype.
In his e iew, we desc ibe and analyse he co espondence o mos o he published molecula
and me abolic signa u es o PDAC and p opose a modi ied me abolic signa u e ha could s a i y
pa ien s acco ding o me abolic needs independen ly o he mu a ional load.
2. PDAC Mu a ional P o ile
Many s udies ha e been conduc ed on PDAC samples o de e mine molecula abe a ions a DNA,
RNA, p o ein and epigene ic le els [
9
]. In gene al e ms, mu a ions in indi idual genes comp ise 10 main
pa hways: DNA damage epai (TP53 o BRCA2), cell cycle egula ion (Cyclin-Dependen Kinase
Inhibi o 2A,CDKN2A),T ans o mingg ow h ac o -be a(TGF-
β
)pa hway (SMAD4), NOTCHandWNT
signalling, ch oma in egula ion, Ex acellula Signalling Regula ed Kinases (ERK)-Mi ogen-Ac i a ed
P o ein Kinases (MAPK) signalling (K-RAS,B-RAF), axonal guidance and RNA p ocessing [10,11].
Al oge he , K-RAS gain o unc ion, accoun ing o up o 90% o PDAC cases, and inac i a ion
o he umou supp esso genes p16/CDKN2A,SMAD4 and TP53 con ibu e o PDAC o ma ion,
main enance, p og ession and, ul ima ely, me as asis onse . Occasionally, he mu a ions occu in o he
componen s o he pa hway in which hey a e in ol ed [
9
,
12
,
13
]. In addi ion, genome-wide and
exome-wide analyses ha e iden i ied a long lis o less equen al e a ions in genes ela ed o axon
o ien a ion o DNA damage epai , such as BRCA1 o BRCA2 [
12
,
14
,
15
]. Mo eo e , mos PDACs show
complex pa e ns o ch omosomal ea angemen [16,17].
Some indings ha e sugges ed a linea pa hway o e olu ion om no mal cells o PDAC cells,
in which no all mu a ions occu a he same ime. Telome e sho ening is conside ed he igge o
panc ea ic umo igenesis by inducing gene ic ins abili y, coupled wi h a mu a ion in he K-RAS gene.
Su i ing cells a e hen al e ed by loss o CDKN2A unc ion. In hi d place, he umou supp esso genes
TP53 and SMAD4 a e inac i a ed, leading o in e media e s ages called panc ea ic in aduc al neoplasias
(PanINs) and, ul ima ely, ull-blown PDAC [
10
,
18
]. Howe e , i seems ha in some cases, CDKN2A,
TP53 and SMAD4 mu a ions can occu in a single e en , which is called “punc ua ed equilib ium” [
11
].
2.1. K-RAS
K-RAS is one o he h ee mu a ionally ac i a ed o ms o he Ras p o ein, oge he wi h H-RAS
and N-RAS. I is he mos ep esen ed one among all cance s bea ing RAS mu a ions, and he one
exclusi ely mu a ed in PDAC. Mo eo e , i is known o be he main d i e mu a ion o his disease,
since K-RAS is mu a ed in >90% o he cases, hus making PDAC he mos RAS-addic ed o all cance
ypes [19]. Howe e , K-RAS ac i a ion alone is no su icien o PDAC de elopmen [20,21].
Ras p o eins a e small GTPases ha ac as signalling swi ches egula ing cell p oli e a ion, su i al,
di e en ia ion and in lamma ion, by ac i a ing he MAPK module. In a no mal scena io, Ras is ound
in i s inac i e o m coupled o guanosine diphospha e (GDP) and, upon ac i a ion by di e se
ex acellula s imuli, Ras becomes ac i e by coupling guanosine iphospha e (GTP), hus swi ching on
downs eam e ec o s such as ERKs, Jun Amino-Te minal Kinases (JNKs), S ess-Ac i a ed P o ein
Kinases (p38/SAPKs) and PI3K/PDK1/AKT, amongs o he s [
22
,
23
]. In PDAC and o he cance s bea ing
oncogenic K-RAS mu a ions, his p o ein is cons i u i ely ac i e in a GTP-bound s a e. PDAC-associa ed
K-RAS al e a ions mainly ha bou missense mu a ions ha depend on allele dosage o umo igenesis
J. Clin. Med. 2020,9, 4128 3 o 21
and me as asis onse , and con ibu e o PDAC e olu ion om PanINs o inal cance o ma ion wi h
he loss o o he key PDAC-d i ing playe s [24].
2.2. p16/CDKN2A
Along he e olu iona y cou se o PDAC onse , K-RAS mu a ion is ollowed by he occu ence o
gene ic al e a ions in he umou supp esso gene CDKN2A in 95% o PDAC pa ien s [
24
]. Tumou
supp esso genes a e impo an o es ain abe an cell p oli e a ion in he con ex o oncogenic
signalling and, o ha end, hese genes ely on di e en s a egies such as cell cycle a es , apop osis o
senescence induc ion. Speci ically, he gene CDKN2A, encoding o P16INK4a and P14RF p o eins,
shows a dual mechanism: P16INK4a inhibi s Cyclin Dependen Kinases (CDK) 2 and 4, hus p e en ing
cell cycle o p og ess in o S-phase, while P14RF igge s P53 by inhibi ing i s inhibi o , Mouse double
minu e 2 homolog (MDM2), he eby inducing g ow h a es and apop osis [25].
2.3. TP53
P53, he p o ein encoded by heTP53 gene, isknown obe he“genome gua dian”due oi sessen ial
ole upon ch oma in damage. Amongs i s main unc ions, we ind cell cycle blockade and ac i a ion
o DNA epai enzymes. Ul ima ely, P53 may lead he cell o a senescence s a e and/o apop osis
when DNA damage is no longe epa able. Gene ic inac i a ion o TP53 is p esen in up o 75% o
all PDAC cases and appea in ad anced PanINs a e loss o CDKN2A. Loss o unc ional P53 leads
o an uncon olled s a e o p oli e a ion [
25
]. Impo an ly, mu an P53 may con ibu e o me as a ic
p og ession o K-RAS-d i ing PDAC-bea ing mice, highligh ing a no el ole o his ansc ip ion ac o
in la e s ages o PDAC beyond he malignan ans o ma ion o PanINs in o PDAC [26,27].
2.4. SMAD4
SMAD4 se es as he cen al media o o TGF-
β
pa hway and i is known o be he ou h
and, oge he wi h TP53, ul ima e d i e o PDAC ini ia ion [
28
]. Howe e , he ole o SMAD4
in he pa hogenesis o PDAC is complex and i s inal esul s a e con ex -dependen . On he one
hand, he TGF-
β
pa hway is a well-accep ed epi helial- o-mesenchymal ansi ion (EMT) induce [
29
],
and also in PDAC [
25
], hus highligh ing i s p o- umo igenic po en ial. Con e sely, Smad4 signalling
in he KPC (LSL-K asG12D/+;LSL-T p53R172H/+;Pdx-1-C e) mouse PDAC model media es a umou
supp essi e p ocess known as “le hal EMT”. In his scena io, Smad4 igge s apop osis h ough
ep ession o he gas oin es inal lineage-mas e egula o Kl 5 and, consequen ly, inhibi s PDAC
p og ession induced by Kl 5/Sox4. Consequen ly, he loss o SMAD4 umou supp essi e unc ion
may con ibu e o panc ea ic oncogenesis h ough he TFG-βcanonical pa hway [30].
3. PDAC Molecula Signa u es
Besides pu ely mu a ional analyses, a conside able numbe o genomic and ansc ip omic s udies
in pa ien samples ha e iden i ied he exis ence o PDAC sub ypes wi h p ognos ic and biological
ele ance, as de ailed below.
Collisson e al. [
31
] epo ed he i s exhaus i e ansc ip omic analysis on clinical samples,
and based hei classi ica ion on gene exp ession and molecula p o iling. PDAC issues we e classi ied
in o “classical”, “quasi-mesenchymal” and “exoc ine-like” (Table 1), wi h di e en p ognoses and
esponses o selec ed he apies. The classical sub ype showed high exp ession o epi helial and
adhesion-associa ed genes, such as he ansc ip ion ac o GATA6, and a ou able p ognosis ega ding
su i al a e PDAC esec ion. On he o he hand, he quasi-mesenchymal sub ype exhibi ed high
exp ession o mesenchymal-associa ed genes, was ela i ely less dependen on K-RAS han he classical
one, and, impo an ly, was associa ed wi h poo p ognosis. Finally, he exoc ine-like sub ype e ealed
high exp ession o diges i e exoc ine enzyme genes. Howe e , he las sub ype was no ound in
cance cell lines, aising conce ns abou i s speci ici y [32].
J. Clin. Med. 2020,9, 4128 4 o 21
Table 1. Molecula Panc ea ic Duc al Adenoca cinoma (PDAC) signa u es.
Au ho Type o S udy Type and Numbe o
PDAC Samples
Dys egula ed Pa hways
and Mu a ions Ou come
Collison e al. [31] T ansc ip ional
1. Clinical samples
mic oa ay da ase s
Mic odissec ed (n=27)
GSE15471 (n=36)
GSE11838 (n=107)
GSE16515 (n=52)
E-MEXP-950 (n=50)
2. Valida ion:
Mouse cell lines (n=15)
Human cell lines (n=19)
Classical: (↑) Adhesion-
associa ed genes (GATA6).
Mo e K-RAS-dependen
Good
Quasi-mesenchymal: (↑)
Mesenchymal associa ed genes Bad
Exoc ine: (↑) Diges i e exoc ine
enzyme genes
Mo i e al. [33] T ansc ip ional
1. Mic oa ay da a
P ima y umou (n=145)
Me as a ic umou (n=61)
Cell lines (n=17)
Panc eas no mal samples (n=46)
Dis an si e adjacen samples (n=88)
2. Valida ion
P ima y umou s (n =15)
PDXs (n=37)
Cell lines (n=3)
CAF lines (n=6)
Classical: Classical Collison ((↑)
adhesion-associa ed genes (GATA6))
and SMAD4
Good
Basal: (
↑
) Genes also highly exp essed
in basal umou s in bladde and
b eas cance
Bad
No mal s oma: (
↑
) Panc ea ic s ella e
cells, smoo h muscle ac in, imen in
and desmin ma ke s
Good
Ac i a ed s oma: (↑) Mac ophages,
umou p omo ion and ib oblas
ac i a ion-associa ed genes
Bad
Bailey e al. [10]Mu a ional
T ansc ip ional
P ima y PDAC umou samples and
a e acina cell ca cinoma (n=382)
PDAC exomes (n=74)
Squamous: Hype me hyla ion and (
↓
)
panc ea ic endode mal cell a e genes.
TP53,KDM6A and TP63∆N
Bad
Panc ea ic p ogeni o : (↑) Panc ea ic
ea ly de elopmen genes (PDX1)Good
ADEX: (↑) K-RAS ac i a ion and
panc ea ic la e de elopmen and
di e en ia ion genes
Immunogenic: (↑) Immune
supp ession and s ong
immune in il a ion
Zhao e al. [34]T ansc ip ional
(me analysis)
1. Mic oa ay da ase s o PDAC
p ima y umou samples (n=1268)
TCGA (n=172)
GSE79670 (n=51)
TCGC PACA-AU (n=71)
MTAB-1791 (n=195)
ICGC a ay (n=178)
GSE71729 (n=145)
GSE62165 (n=118)
GSE62452 (n=69)
GSE57495 (n=63)
GSE60980 (n=49)
GSE77858 (n=46)
GSE55643 (n=45)
GSE15471 (n=39)
L1: (↑) Me abolic genes
L2: (↑) Me abolic, cell p oli e a ion
and epi helium genes (CDKN2A)Bad
L3: (↑) Collagen and ECM
associa ed genes
L4: (↑) Immune p o ile Good
L5: (↑) Neu oendoc ine and insulin
ela ed pa hways Good
L6: (↑) Me abolic and diges i e
enzyme genes
Lombe k e al. [35]Epigene ic
1. PDXs (n=24)
2. Clinical samples
mic oa ay da ase s
GSE71729 (n=145)
ICGC (n=178)
TCGA (n=172)
Classical: (↑) TFs in ol ed in
panc ea ic de elopmen , me abolic
egula o s and Ras signalling
Good
Basal: (↑) TF p oli e a i e and
ansc ip ion nodes Bad
Mau e e al. [36]
T ansc ip ional
Compu a ional
modelling
1. P ima y PDAC umou
samples (n=122)
2. Clinical samples
mic oa ay da ase s
GSE71729 (UNC) (n=125)
ICGC (n=93)
TCGA (n=127)
Classical: Classical Mo i Good
Basal: Basal Mo i Bad
Immune- ich: (↑) immune and
in e leukin le els Good
ECM- ich: (↑) ma ix
ex acellula pa hways Bad
Dijk e al. [37] T ansc ip ional
1. P ima y PDAC umou
samples (n=90)
2. Panc ea ic cance PDXs
coho (n=14)
3. PDAC Cell lines coho (n=51)
Epi helial: (↑)MYC, mi ochond ial
componen s and ibosome signa u e Good
Mesenchymal: (↑)K-RAS, pa hways
ela ed o EMT, s omal signalling
and TGF-β
Bad
Compound panc ea ic: Simila o he
mesenchymal sub ype and (↑)
endoc ine pa hways
Good
J. Clin. Med. 2020,9, 4128 5 o 21
Table 1. Con .
Au ho Type o S udy Type and Numbe o
PDAC Samples
Dys egula ed Pa hways
and Mu a ions Ou come
Chan-Seng-Yue
e al. [38]
Whole genome
sequencing
T ansc ip ional
Lase cap u e mic odissec ed samples
om la e-s age PDAC
1. WGS (n=314)
2. Bulk RNAseq (n=248)
3. Single-cell RNAseq (n=15)
Classical A/B: (↑)SMAD4 and
GATA6 al e a ions Good
Basal-like A/B: (↑) EMT and TGF-β
pa hways, loss o CDKN2A,TP53
mu a ions, K-RAS imbalance
Bad
Hyb id Mid
Nicolle e al. [39] T ansc ip ional PDXs (n=76) G aded ypes be ween classical and
basal based on umou di e en ia ion
G ade
dependan
Fo each classi ica ion, ype o s udy, ype and numbe o samples, dys egula ed pa hways and mu a ions and p ognosis
a e desc ibed in each column. Up- egula ed and down- egula ed pa hways a e shown as (
↑
) and (
↓
), espec i ely. CAF,
Cance -Associa ed Fib oblas ; EMT, Epi helial- o-Mesenchymal T ansi ion; PDAC, Panc ea ic Duc al Adenoca cinoma;
PDX, Pa ien -De i ed Xenog a ; TF, T ansc ip ion Fac o ; WGS, Whole Genome Sequencing.
Mo i e al. [
33
] pe o med ansc ip ional analysis o classi y PDAC umou s in o wo sub ypes
wi hin wo di e en issues (Table 1): umou and s oma. Based on umou cells, PDAC samples
we e classi ied in o “classical” and “basal” sub ypes. The classical g oup was en iched in SMAD4
and GATA6, while he basal sub ype was molecula ly simila o basal umou s in bladde and b eas
cance . Al hough classical umou s showed be e p ognosis, pa ien s wi h basal umou s esponded
be e o adju an he apy. On he o he hand, he s oma was di ided in o “no mal” and “ac i a ed”
sub ypes. The no mal s omal g oup showed high le els o ma ke s o panc ea ic s ella e cells,
smoo h muscle ac in, imen in and desmin. Howe e , he ac i a ed s omal sub ype was de ined by
a complex se o genes associa ed wi h mac ophages, umou p omo ion and ib oblas ac i a ion;
his desc ibed an ac i a ed p o- umo igenic in lamma o y s omal esponse wi h poo p ognosis.
Compa ing hei signa u e wi h Collisson’s [
31
], Mo i e al. ound an o e lap be ween bo h classical
sub ypes, while genes in he quasi-mesenchymal sub ype seemed a mixed selec ion o genes om
basal and s omal sub ypes (Table 2) [33].
Table 2. Molecula sub ypes co esponding o PDAC classi ica ion.
Au ho s Common Sub ypes O he s
Collisson e al. [31] Classical
Quasi-mesenchymal
Exoc ine-like
Mo i e al. [33] Classical Basal-like No mal and ac i a ed
s oma
Bailey e al. [39] P ogeni o Squamous ADEX Immunogenic
Zhao e al. [34] L1 L2 L6 L3, L4 and L5
Lombe k e al. [35] Classical Basal
Mau e e al. [36] Classical Basal Immune- ich and ECM- ich
Dijk e al. [37] Epi helial Mesenchymal Sec e o y Compound panc ea ic
Chan-Seng-Yue e al. [
38
]
Classical (A, B) Basal-like (A, B) Hyb id
Nicolle e al. [39] F om Classical o Basal
Co ela ed sub ypes a e g ouped in columns. Colou s de ine he subg oups wi h he bes (g een) o wo s ( ed)
p ognosis. ECM, Ex acellula Ma ix.
La e , Bailey e al. [
10
] de ined new molecula sub ypes o PDAC based on comp ehensi e
in eg a ed genomic analysis and RNA exp ession p o iles: “squamous”, “panc ea ic p ogeni o ”,
“abe an ly di e en ia ed endoc ine exoc ine” (ADEX) and “immunogenic” (Table 1). The squamous
sub ype was linked o hype me hyla ion and down- egula ion o genes de e mining endode mal
iden i y in panc eas, wi h poo p ognosis in pa ien s. I was also en iched in TP53 and KDM6A
mu a ions and up- egula ion o he ansc ip ional ne wo k TP63
∆
N. PDAC p ogeni o - ype umou s
exp essed genes in ol ed in ea ly de elopmen o he panc eas, such as PDX1. The ADEX class
o e exp essed ansc ip ional pa hways p esen in K-RAS ac i a ion and in la e s ages o panc ea ic
de elopmen and di e en ia ion. Las ly, he immunogenic sub ype had panc ea ic p ogeni o ea u es,
bu i was ela ed o acqui ed immune supp ession pa hways (CTLA4 and PD-1) and s ong immune
in il a ion (B and T cells). When hey compa ed hei classi ica ion wi h ea lie s udies, h ee o hei
J. Clin. Med. 2020,9, 4128 6 o 21
classes di ec ly o e lapped wi h Collisson’s g oups [
31
]: Collisson’s classical, quasi-mesenchymal
and exoc ine-like sub ypes ma ched Bailey’s panc ea ic p ogeni o , squamous and ADEX g oups,
espec i ely (Table 2). In addi ion, 50% o he squamous sub ype umou s we e included in Mo i ’s
basal subg oup [33].
In 2018, Zhao e al. [
34
] conduc ed a e ospec i e me a-analysis o comple e ansc ip ome da a
om pa ien s wi h PDAC (Table 1). They ob ained six di e en sub ypes g ouped in umou - (L1, L2
and L6) and s omal-speci ic (L3, L4 and L5) sub ypes. L1, L2 and L6 we e all en iched in me abolic
genes, as de ailed in Sec ion 5. Besides me abolism, he sub ypes we e di e en ially en iched in o he
ou es: L2 was ela ed o cell p oli e a ion and epi helium genes, such as CDKN2A; L3 had inc eased
egula ion o collagen and ex acellula ma ix (ECM)-associa ed genes; L4 had an immune p o ile;
L5 was in ol ed in neu oendoc ine and insulin- ela ed pa hways; L6 showed ac i i y o diges i e
enzymes. Each exp ession p o ile was ela ed o clinical da a: epi helium and p oli e a ion in L2
showed he poo es p ognosis, immune and neu oendoc ine p o iles a L4 and L5 showed he bes
ou comes. Conside ing he abo e s a i ica ions o PDAC, Zhao e al. ound ha L1 and L6 we e e y
simila o he classical Mo i ’s sub ype, while L2 app oached hei basal sub ype (Table 2). L1, L2 and
L6 we e close o he ac i a ed sub ype. In Bailey’s da ase , L1 and L4 app oxima ed he immunogenic
sub ype, L2 he squamous, L3 he panc ea ic p ogeni o and L6 esembled he ADEX sub ype. Finally,
L1 and L3 we e simila o Collison’s classical sub ype, L2 app oached he quasi-mesenchymal and L6
ela ed o he exoc ine-like one.
Lombe k e al. [
35
] iden i ied epigenomic landscapes o PDAC sub ypes by pe o ming
an in eg a i e analysis o genome-wide Ch oma in Immunop ecipi a ion-sequencing (ChIP-seq) on
mul iple his one modi ica ions, as well as RNA-sequencing (RNA-seq) and DNA me hyla ion s udies
(Table 1). They epo ed wo sub ypes: “classical” and “basal”, which co ela ed wi h clinical pa ame e s.
Supe enhance mapping coupled wi h T ansc ip ion Fac o (TF) binding mo i and up- egula ion
analysis showed ha classical umou s we e ela ed o TFs in ol ed in de elopmen o he panc eas,
me abolic egula o s and K-RAS signalling, while basal umou s co ela ed wi h p oli e a i e and EMT
TF nodes. The basal samples we e linked o a mo e agg essi e pheno ype han he classical ones.
Mau e e al. [
36
] used Lase Cap u e Mic odissec ion (LCM) o sepa a e s omal and epi helial
compa men s o PDAC bulk umou samples, and con i med using machine lea ning echniques ha
s omal con amina ion may in e e e wi h PDAC classi ica ion (Table 1). In addi ion, hey desc ibed
wo epi helial sub ypes o PDAC ha co ela ed wi h he classical and basal sub ypes om Mo i e al.,
wi h he basal sub ype ha ing a poo e p ognosis han he classical (Table 2). Mo eo e , hey iden i ied
wo s omal sub ypes, an “immune- ich” g oup cha ac e ised by high immune and in e leukin le els,
and an “ECM- ich” g oup, associa ed wi h ex acellula ma ix pa hways. The ECM- ich sub ype
appea ed o ha e dec eased su i al compa ed wi h he immune- ich one. Finally, hey ound an
associa ion o he epi helial and s omal sub ypes in which he basal epi helium sub ype and he
ECM- ich s oma we e linked.
In 2020, Dijk e al. [
37
] conduc ed an unsupe ised consensus clus e ing and iden i ied ou
molecula sub ypes: “sec e o y”, “epi helial”, “compound panc ea ic” and “mesenchymal” (Table 1).
The sec e o y sub ype showed en ichmen in endoc ine and exoc ine pa hways o he panc eas.
Tumou s o he epi helial sub ype we e cha ac e ised by up- egula ion o he MYC oncogene and high
exp ession o mi ochond ial componen s and ibosome signa u e. The mesenchymal sub ype had
high le els o K-RAS ansc ip ion and was en iched in pa hways ela ed o EMT, s omal signalling
and TGF-
β
. The compound panc ea ic sub ype p esen ed simila cha ac e is ics o he mesenchymal
sub ype bu , in addi ion, was en iched in endoc ine unc ions. The sec e o y and mesenchymal
sub ypes p esen ed wo se p ognosis han he epi helial and compound panc ea ic ones. Dijk e al.
ound an in e connec ion be ween hese sub ypes and hose desc ibed by Collison, Bailey and Mo i
(Table 2). Fo example, he sec e o y sub ype co ela ed signi ican ly wi h Collison’s exoc ine-like,
Bailey’s ADEX, and Mo i ’s basal sub ypes. The epi helial sub ype sha ed cha ac e is ics wi h he
Collison’s and Mo i ’s classical sub ypes, bu also wi h he Bailey
´
s panc ea ic p ogeni o and squamous
J. Clin. Med. 2020,9, 4128 7 o 21
sub ypes. The compound panc ea ic g oup was simila o Collison’s exoc ine, Bailey’s ADEX and
Mo i ’s classical. Las ly, he mesenchymal sub ype co ela ed wi h Collison’s quasi-mesenchymal,
Bailey’s squamous and Mo i ’s basal.
Chan-Seng-Yue e al. [
38
] pe o med whole genome sequencing and bo h bulk and single-cell
RNAseq analyses on lase cap u e mic odissec ed umou s om mo e han 200 la e-s age pa ien s.
They iden i ied h ee majo sub ypes: “classical”, “basal-like” and “hyb id” (Table 1). Al hough he
classical and basal-like sub ypes we e ai ly o e lapped wi h he p e ious classi ica ions by Mo i ,
Bailey and Collison (Table 2), hey ound ha hese sub ypes could be subdi ided in o A and B subclasses
wi h di e ences in hei esponse o chemo he apy, agg essi eness and disease s age. Fo example,
basal-like A umou s a e highly chemo esis an and ea u e a high squamous signa u e en iched in
me as a ic umou s, while basal-like B umou s co espond o a low squamous signa u e p esen in
esec able umou s. Impo an ly, hey ound ha classical and basal-like p og ams co-exis wi hin
a umou and demons a ed ha molecula sub ypes a e linked o a speci ic copy numbe abe a ions
in genes such as mu an K-RAS (basal-like sub ype) and GATA6 (classical sub ype).
Finally, Nicolle e al. [
39
] p oposed a molecula g adien classi ica ion o s ablish a PDAC
ansc ip omic signa u e ha could be e ep esen he exis ence o in e media e cellula pheno ypes
be ween classical and basal-like sub ypes (Table 1). In his s udy, hey g aded Pa ien -De i ed Xenog a s
(PDXs) acco ding o di e en molecula le els o di e en ia ion and con i med ha he highe exp ession
o genes linked o he classical PDAC sub ype (GATA6) was co ela ed wi h inc eased di e en ia ion o
PDX samples, while lowe exp ession o genes was linked o he basal-like sub ype. They also ound
ha he highe he di e en ia ion o he umou , he be e he p ognosis and esponse o chemo he apy.
In e es ingly, al hough pa ial o e lap amongs he di e en signa u es and molecula sub ypes
can be ound in hese s udies, ecen wo ks using single-cell ansc ip omics demons a ed ha se e al
sub ypes can co-exis wi hin a umou [
38
,
40
], u he unde lining he high le el o he e ogenei y
p esen in PDAC umou s. Undoub edly, mo e e o s in his di ec ion a e equi ed o u he dissec
he complexi y o hese umou s, as well as o deciphe he in e play o he di e en subpopula ions
du ing disease p og ession.
4. Me abolic Rep og amming in PDAC
A he his ological le el, one o he mos no able cha ac e is ics o PDAC is i s dense s oma,
being up o 90% o he umou olume. I s main ea u es a e ex ensi e ib osis, lack o ascula isa ion,
hypoxia and immune in il a ion. Hypoxia is associa ed wi h inc eased cance cell p oli e a ion,
su i al, EMT, in asi eness and me as asis [41].
The lack o ascula isa ion no only causes hypoxia in he umou , bu also causes me abolic s ess
due o nu ien dep i a ion. As a esul , umou cells unde go he so-called “me abolic ep og amming”,
an upda ed hallma k o cance [
32
,
42
]. Cance cells inc ease nu ien acquisi ion along wi h enhanced
low h oughanabolic pa hways. Thisleads oinc easedglycolysisandglucose anspo , highglu amine
consump ion, lipid and amino acid biosyn hesis and main enance o edox homeos asis. In addi ion,
ecycling o cellula componen s also occu s h ough au ophagy, which deg ades mac omolecula
complexes and o ganelles in o indi idual me aboli es [41,43–45].
4.1. Wa bu g Pheno ype
The majo example o me abolic ep og amming is highe glucose consump ion. The ole o
glucose me abolism in cance was well de ined by O o Wa bu g back in he la e 1920s, leading o be
conside ed one o he hallma ks o cance [
46
]. Glycoly ic low is p ecisely con olled o ul il apid
p oli e a i e and syn he ic needs. Unlike no mal cells, umou cells ha e high le els o glycolysis,
e en in he p esence o oxygen and educed mi ochond ial unc ion, leading o a s a e called “ae obic
glycolysis”, also called he “Wa bu g e ec ”. On he o he hand, he “ e e se Wa bu g e ec ”
desc ibes a wo-compa men model in which cance cells induce ae obic glycolysis in he s omal
cells, whose glycolysis end-p oduc s a e ans e ed o he cance cells o eed mi ochond ial oxida i e
J. Clin. Med. 2020,9, 4128 8 o 21
phospho yla ion (OXPHOS). This allows umou s o espond o a ia ions in nu ien a ailabili y and
o op imise cell p oli e a ion and g ow h [
47
]. In e es ingly, his wo-compa men model can also
be applied conside ing he unc ional he e ogenei y o cance cells in PDAC: glycoly ic di e en ia ed
umou cells could p o ide subs a es o oxida i e cance s em cells (CSCs) [48].
A hypo hesis o me abolic ewi ing owa ds enhanced glycolysis o e he educ ion o
mi ochond ial oxida ion as a sou ce o ATP in PDAC is he p esence o a dense desmoplas ic
s oma, which basically impedes neo ascula isa ion. This c ea es a hypoxic mic oen i onmen in
which oxygen and nu ien s a e limi ed [
49
]. This s a e c ea es a posi i e eedback loop by which, on he
one hand, panc ea ic cance cells eel a selec i e p essu e unde he hypoxic and nu ien sho age
whe e only he mos agg essi e popula ions will emain. On he o he hand, unde such s ess-d i en
si ua ions, panc ea ic cance cells a e o ced o modi y hei me abolism in o de o cope wi h hei
bioene ge ic demands o PDAC p og ession, expansion and dissemina ion h ough he blood essels
owa ds less sca ce en i onmen s [
50
]. Indeed, a ecen s udy demons a ed ha glycolysis and hypoxia
signa u es co ela e in PDAC and ha P olyl 4-Hyd oxylase subuni Alpha 1 (P4HA1), a c i ical enzyme
in ol ed in collagen syn hesis, con ols glycolysis h ough HIF1
α
s abilisa ion [
51
]. Mo eo e , gene
exp ession a ays o me as a ic PDAC e ealed a glycolysis-based signa u e cha ac e ised by inc eased
exp ession o many glycoly ic enzymes [52], highligh ing he impo ance o glycoly ic me abolism in
PDAC p og ession. In ac , Liu e al. ecen ly demons a ed ha he EMT- ela ed gene SNAIL was
able o induce a mig a o y pheno ype in PDAC cell lines by p omo ing mesenchymal- ela ed genes
exp ession along wi h enhanced glucose up ake and lac a e p oduc ion [53].
O e all, he glycoly ic s a e is cha ac e ised by an inc eased exp ession o glycoly ic enzymes
and glucose and lac a e anspo e s, such as Glucose T anspo e 1 (GLUT1), and Monoca boxyla e
T anspo e s 1 and 4 (MCT1, MCT4) [
54
,
55
]. Speci ically, he o e exp ession o hese memb ane
anspo e s leads o an enhanced glucose sca enging om he hypo ascula ised umou
mic oen i onmen , which esul s in inc eased glucose a ailabili y in he cance cell as well as a be e
balance o he glucose pa hway in o de o keep glycolysis a high a e. On he one hand, GLUT1 is
an ATP-independen glucose anspo e ha enables glucose ans e ence om a high-g adien
ex acellula compa men o low-g adien cy oplasmic compa men . I s exp ession dosage has been
epo ed o be associa ed wi h PDAC p og ession om low- o high-g ade panc ea ic p eneoplas ic
lesionswhencompa ed ono mal panc eas[
54
]. On heo he hand, MCT1 andMCT4a e p o on-coupled
sympo anspo e s wi h highe a ini y o lac a e e lux. These anspo e s implica ed in glucose
homeos asis a e equi ed o cance cells o neu alise in acellula acidi ica ion due o he inc eased
glycoly ic a e and ha e been epo ed o be o e exp essed in PDAC. Kong e al. showed ha inhibi ion
o knockdown o MCT esul ed in an inhibi ed lac a e lux. In e es ingly, hey also demons a ed ha
hese anspo e s a e implica ed in PDAC cell lines in asi eness, hus highligh ing once again he
implica ions o glucose homeos asis in panc ea ic cance [56].
Impo an ly, he up- egula ion o mos o hese genes is media ed by PDAC d i e mu a ions on
K-RAS and TP53. As e iewed by B yan e al. [
57
], oncogenic K-RAS enhances he exp ession o many
glycoly ic enzymes such as GLUT1, Hexokinase 1 and 2 (HK1, HK2) and Lac a e Dehyd ogenase A
(LDHA), hus inc easing glycoly ic lux. This me abolic ep og amming owa ds glycolysis con ibu es
o an enhanced su i al o glycoly ic PDAC cell lines in he p esence o low le els o glucose.
Mo eo e , ano he s udy based on ansc ip ome and me abolome analyses showed ha mu an
K-RAS in ad anced PDAC mouse models is necessa y o an enhanced glucose up ake [
57
]. This s udy
also e ealed ha abe an K-RAS is implica ed in glucose me abolism in e media es channelling
in o di e en anabolic pa hways, such as he hexosamine biosyn hesis pa hway (HBP) and pen ose
phospha e pa hway (PPP), hus p o ing ha glucose me abolism is necessa y o uel anabolic b anches
o PDAC me abolism o p o ide he cance cells wi h building blocks o i s inc eased p oli e a ion
demands [
58
]. Mo eo e , he enhanced exp ession o he glycoly ic enzymes was demons a ed o be
ela ed o bad PDAC p ognosis, in asi eness and me as ases onse [59].
J. Clin. Med. 2020,9, 4128 9 o 21
4.2. Lipid Me abolism in PDAC
PDAC umou s a e also highly dependen on lipid me abolism [
60
,
61
] and, in ac , a high a die
was shown o suppo umou g ow h in mu ine models [
60
]. On he one hand, a y acids (FA) can be
p o ided exogenously by he abso p ion o ex acellula lipids ( om die , li e syn hesis o adipose
issue). Fo example, cance -associa ed adipocy es can p o ide adipokines and lipids o cance cells [
62
],
inc easing panc ea ic cance cell agg essi eness [
63
]. The exogenous FA up ake equi es he p esence o
he anspo e CD36 and FA-binding p o eins (FABPs). CD36 can also in luence gemci abine esis ance
in PDAC, by egula ing an i-apop osis p o eins [
64
,
65
]. Unsu p isingly, PDAC pa ien s wi h high
CD36 exp ession ha e lowe o e all su i al and ecu ence- ee su i al a es han pa ien s wi h low
exp ession. In his con ex , CD36 could be conside ed as an un a ou able p ognosis ac o and he use
o an i-CD36 s a egies in associa ion wi h con en ional chemo he apies could ep esen a p omising
he apeu ic app oach [64,66].
On he o he hand, panc ea ic cance cells can syn hesise de no o lipids h ough he lipogenesis
p ocess, p oducing mo e han 90% o he iacylglyce ol-FA. This p ocess uses he mi ochond ial
ci a e p oduced om he ica boxylic acid (TCA) cycle uelled by glucose and/o glu amine as
ca bon sou ces [
67
]. Lipogenic enzymes a e o en o e exp essed in PDAC cells; o example Fa y
Acid Syn hase (FASN) is pa icula ly p ominen and associa ed wi h poo p ognosis [
61
,
68
–
70
].
The pha macological inhibi ion o his enzyme educes s emness ea u es and gemci abine esis ance
in panc ea ic cance cells [
71
]. The p oduced iacylglyce ol molecules a e s o ed in lipid d ople s and
a co ela ion was es ablished be ween he accumula ion o lipid d ople s and umou p og ession and
agg essi eness [72]. Likewise, an ele a ed lipid syn hesis co ela es wi h CSC p ope ies and su i al
in di e en ypes o cance [
72
]. Thus, cance cells acqui e FA h ough ei he lipid up ake o de no o
lipogenesis, and ac i a e in acellula lipolysis o mobilise he FA s ocks.
FA sus ain h ee equi emen s o PDAC de elopmen and cance cells in gene al: cell memb ane
o ma ion, biosyn hesis o signalling molecules and lipid-de i ed messenge s, and ene gy p oduc ion.
Fi s o all, lipid syn hesis is an impo an equi emen o highly p oli e a i e cance cells o sus ain
memb ane o ma ion [
72
]. F om de no o syn hesis, sa u a ed o monounsa u a ed FA modula e
memb ane luidi y and o m mo e dense memb ane laye s ha may educe he up ake o d ugs
and con ibu e o he apy- esis ance [
73
]. Mo eo e , lipids a e implica ed in signal ansduc ion in
wo di e en ways: by building lipid a s modula ing p o ein ec ui men s and in e ac ions, as well as
by o ma ion o lipidic signalling molecules. This is he case o phospha idylinosi ol-3,4,5- isphospha e
[PI(3,4,5)P3], able o ac i a e he p o ein kinase B/AKT and s imula e cell p oli e a ion and su i al [
73
].
Finally, FA ep esen an impo an sou ce o ene gy in non-glycoly ic umou s, using he mi ochond ial
β
-oxida ion ( a y acid oxida ion, FAO) o p oduce ATP [
72
,
73
]. In ha con ex , Luo e al. demons a ed
ha he use o e omoxi , an inhibi o o FAO by blocking he en ance o FA in he mi ochond ia ia
Ca ni ine Palmi oyl T ans e ase 1A (CPT1A), can es o e he sensi i i y o panc ea ic CSCs o gemci abine
by inducing an ene gy c isis in hose cells [
74
]. These da a sugges ha CPT1A is an impo an ac o o he
cance me abolism ep og amming and could ep esen an a ac i e he apeu ic a ge , and highligh
how his p ocess is impo an o he cance cell o supply ATP unde ene gy s ess.
Addi ionally, PDAC cells a e also highly dependen on choles e ol, as i con ibu es, o example,
o he o ma ion o lipid a s, hus modula ing he ec ui men o key oncogenes ecep o such as he
Epide mal G ow h Fac o (EGF)- ecep o and egula ing su i al pa hways. Cance cells can inc ease
hei con en h ough ei he syn hesis ( h ough me alona e pa hway) o endocy osis media ed by
low-densi y lipop o eins (LDL) and LDL Recep o (LDLR). In PDAC pa ien s, choles e ol biosyn hesis
is associa ed wi h a mo e di e en ia ed pheno ype (classical sub ype), while high LDLR exp ession
co ela es wi h a highe isk o umou ecu ence. In e es ingly, inhibi ion o choles e ol syn hesis
induced a mesenchymal pheno ype [
75
] while blocking choles e ol up ake ia he knock-down o
LDLR was able o sensi ise PDAC cells o chemo he apy [76,77].
Taken oge he , all hese epo s p o e he po en ial o lipid me abolism a ge ing in o de o
sensi ise PDAC cells o chemo he apy. Howe e , some an i umou igenic e ec s o speci ic FA like
J. Clin. Med. 2020,9, 4128 16 o 21
7. Conclusions
PDAC is a he e ogeneous disease ha can be classi ied, acco ding o i s me abolic needs, in o
glycoly ic and lipogenic sub ypes wi h di e en p ognosis. Indeed, he glycoly ic sub ype would be
mo e agg essi e and esis an o con en ional chemo he apy han he lipogenic one. This me abolic
s a i ica ion co ela es wi h p e ious molecula classi ica ion sys ems, as hey show sub ypes sha ing
simila cha ac e is ics and p ognosis. In his con ex , classi ica ion in o me abolic sub ypes may be
be e placed o clinical use, since i could p o ide in o ma ion on he unc ional pheno ype o he
umou , co ela ing o agg essi eness, chemo esis ance and me as a ic abili ies independen ly om i s
mu a ional s a e. The in o ma ion collec ed in his e iew s ongly sugges s ha pa ien s a i ica ion
based on me abolic ea u es may bea p ognos ic alue and guide he apeu ic decisions in he u u e,
iden i ying a subg oup o pa ien s wi h poo p ognosis ha may be eligible o pe sonalised ea men s
designed acco ding o me abolic ulne abili ies.
Au ho Con ibu ions:
Concep ualisa ion, P.E.-R. and P.S.; da a analysis and in es iga ion P.E.-R.; w i ing—o iginal
d a p epa a ion, P.E.-R., S.C. and B.P.-A.; w i ing— e iew and edi ing and supe ision and unding acquisi ion, P.S.
All au ho s ha e ead and ag eed o he published e sion o he manusc ip .
Funding:
This esea ch was unded by he Ins i u o de Salud Ca los III h ough he Miguel Se e P og am
(CP16/00121) and Fondo de In es igaciones Sani a ias (PI17/00082) (bo h co- inanced by Eu opean unds (FSE: “El
FSE in ie e en u u u o” and FEDER: “Una mane a de hace Eu opa,” espec i ely) and he Wo ldwide Cance
Resea ch Cha i y oge he wi h Fundaci
ó
n Cien
í
ica Asociaci
ó
n Española con a el C
á
nce (FCAECC) (19-0250).
Acknowledgmen s: We wan o hank Alba Royo and Lau a Sancho o p oo eading he manusc ip .
Con lic s o In e es : The au ho s decla e no con lic o in e es .
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