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183 y. Cell Set. Suppl. 12, 183-195 (1989) Printed in Great Britain © The Company of Biologists Limited 1989 Nuclear structure and the control of DNA replication in the Xenopus embryo J. J. B L O W 1, M . A . S H E E H A N 2 , J. V . W A T S O N 3 a n d R . A . L A S K E Y 2 1ICRF Cell Cycle Control Laboratory, Microbiology Unit, Department ofBiochemistry, South Parks Road, Oxford 0X1 3QU, UK 2CRCMolecular Embryology Research Group, Department of Zoology, Downing Street, Cambridge CB2 3EJ, UK 3MRC Clinical Oncology Unit, MRC Centre, Hills Road, Cambridge CB2 2QH, UK Summary W e h a v e d e v e l o p e d a c e l l - f re e s y s te m f ro m f ro g e g g s th a t e f f i c i e n tl y i n i ti a te s a n d c o m p l e te s a s i n g l e ro u n d o f s e m i - c o n s e rv a ti v e re p l i c a ti o n . 7 0 - 1 0 0 % D N A m o l e c u l e s a re c o m p l e te l y re p l i c a te d o f s p e rm in vitro. B e f o re c h ro m a t i n a n d u p to 4 0 % D N A o f p l as m id is re p l i c a te d i t is a s s e m b l e d i n to n u c l e i s u rro u n d e d b y a d o u b l e u n i t m e m b ra n e s tu d d e d w i th n u c l e a r p o re s . F l o w c y t o m e t ry s h o w s th a t i n i ti a ti o n e v e n ts a re c o - o rd i n a te d w i th i n i n d i v i d u a l n u c l e i , a l th o u g h d i f f e re n t n u c l e i c a n s t a rt to re p l i c a te a t d i f f e re n t ti m e s i n th e s a m e e x t r a c t . T h i s d e m o n s tra te s th e i m p o r t a n c e o f n u c l e a r s t ru c t u re i n th e c o n t ro l o f D N A re p l i c a ti o n i n th i s s y s te m . O n l y a s i n g l e ro u n d o f s e m i - c o n s e rv a ti v e re p l i c a ti o n o c c u r s i n th e c e l l - f re e s y s te m . T h i s m i rro rs th e w a y t h a t o n l y o n e ro u n d o f D N A re p l i c a ti o n o c c u r s i n e a c h c e l l c y c l e in vivo. W h e n re p l i c a te d n u c l e i a re tra n s f e rr e d to f re s h e x t r a c t th e y a re u n a b l e to u n d e rg o a n o th e r ro u n d o f re p l i c a ti o n . H o w e v e r, i f th e n u c l e a r e n v e l o p e is p e rm e a b i l i s e d b e f o re n u c l e i a re tra n s f e rre d to f re s h e x t r a c t , th e D N A b e co m e s cap a b l e o f u n d e rg o i n g a f u rt h e r ro u n d o f s e m i - c o n s e rv a ti v e re p l i c a ti o n . T h ese re s u l ts s u g g e s t a s i m p l e m o d e l f o r th e c o n tro l o f D N A re p l i c a ti o n w i th i n th e c e l l c y c l e , w h e re b y a n e s s e n ti a l i n i ti a ti o n f a c t o r c a n o n l y g a i n a c c e s s to D N A w h e n th e n u c l e a r e n v e l o p e b re a k s d o w n d u ri n g m i to s i s . Introduction E u k a r y o tic DN A d if f e r e n t f r o m re p l ic a tio n is c o n tro l le d in a re m a r k a b le w a y , w h ic h its b io c h e m ic a l c o u n te r p a r t, tr a n s c r ip tio n . T h e is q u ite in itia ti o n o f n e w r e p li c a tio n f o rk s is s tr i c tl y p e ri o d ic , o c c u r r in g o n ly in a d is c r e te p e rio d o f th e c e ll c y c l e . F u r th e r m o r e , in itia ti o n e v e n ts in S p h a se o n ly ta k e p la c e o n D N A th a t h a s n o t a lre a d y b e e n r e p li c a te d in th a t c e ll c y c l e . T h i s m e a n s th a t th e e n tir e g e n o m e is re p l ic a te d p r e c is e l y o n c e in e a c h c e l l c y c l e . O v e r- o r u n d e r- r e p l ic a tio n o f e v e n s m a ll s e c tio n s o f D N A c o u ld b e f a ta l to a c e l l. H o w e v e r, v e ry li ttle is k n o w n a b o u t th e m e c h a n is m s th a t e u k a ry o te s u se to c o n s tra in D N A r e p li c a tio n to a s in g le , p re c is e re p l ic a tio n o f th e g e n o m e in e a c h c e l l c y c l e . O n e o f th e m a jo r li m ita tio n s to u n d e rs ta n d in g th e c o n tr o l o f D N A re p l ic a tio n in e u k a ry o te s h a s b e e n th e la c k o f c e l l- f r e e s y s te m s th a t are a m e n a b le to b io c h e m ic a l a n a ly s is . In p a rti c u l a r, it h a s b e e n d if f ic u lt to r e c r e a te th e in itia ti o n o f r e p li c a tio n f o rk s o n d o u b le - s tr a n d e d D N A in vitro u s in g e u k a ry o tic c e ll e x tr a c ts . T h i s d if f ic u lty m a y in f a c t r e f l e c t th e tig h t c o n tro l s th a t e x i s t K e y w o rd s : D N A re p l i c a ti o n , n u c l e a r a s s e m b l y , in vivo Xenopus e g g s . o n th e in itia ti o n p r o c e s s . 184 J. y. Blow et al. O n e a l te rn a tiv e is to s tu d y th e in itia ti o n e v e n ts o c c u r r in g a t v ira l o rig in s o f re p l ic a tio n . C e ll - f r e e s y s te m s h a v e b e e n d e v e lo p e d th a t s u p p o r t a d e n o v iru s ( C h a lb e r g a n d K e l l y , 1 9 7 9 ) an d S V 4 0 ( L i an d K e l l y , 1 9 8 4 ; S ti l l m a n a n d G lu z m a n , 1 9 8 5 ; W o bbe et al. 1985) D N A in vitro. re p l ic a tio n T h e s e s y s te m s h a v e y ie ld e d m u c h in f o rm a tio n a b o u t th e m e c h a n ic s o f re p l ic a tio n in e u k a ry o te s . H o w e v e r, s in c e v ira l re p l ic a tio n is c h a ra c te ri s e d b y a m p l if ic a ti o n o f v ira l D N A w ith in th e c e ll , th e s e s y s te m s m a y n o t te ll u s v e ry m u c h a b o u t th e w ay th e c e l lu la r D N A re p l ic a tio n is c o n tr o l le d . O u r a p p ro a c h h a s b e e n to r e c r e a te th e in itia ti o n o f c e l lu la r D N A vitro. A s s ta rtin g X enopus laevis. u n d e r g o in g th e r e p li c a tio n in m a te ri a l w e h a v e u se d e g g s o f th e S o u th A f r ic a n c la w e d to a d , T h ese ra p id e g g s c o n ta i n a la rg e s to c k p il e o f m a te ri a l re q u ir e d s e r ie s o f c e l l d iv is io n s th a t o c c u r a f te r f e r ti li s a tio n . fo r O ur e x tr a c ti o n p r o c e d u re is b a s e d o n th e p io n e e rin g w o rk o f L o h k a a n d M a s u i ( 1 9 8 3 ) , w h o s h o w e d th a t g e n tl y h o m o g e n is e d a m p h ib ia n e g g s c o u ld s u p p o r t th e a s s e m b ly o f s p e rm vivo c h r o m a ti n in to s tr u c tu r e s c lo s e ly re s e m b l in g th e m a le p ro n u c l e i f o r m e d a f te r f e r ti li s a tio n . i n c o rp o r a te d Lo hka an d M a s u i a lso n o te d th a t th e s y n th e ti c in n u c le i [ 3H ] th y m i d in e , a n d s u b s e q u e n tly e n te re d a m ito tic - li k e s ta te . T h e s e o b s e rv a tio n s s u g g e s te d th a t it w as p o s s i b l e to p ro d u c e a c e l l- f r e e s y s te m a m p h ib ia n e g g s c a p a b l e o f s u p p o rtin g all th e m a jo r c e l l - c y c l e a c ti v ité s fro m in vitro. O u r s u b s e q u e n t w o rk s h o w e d th a t s im ila r c e l l- f r e e e x tr a c ts s u p p o rte d th e e f f ic ie n t in itia ti o n a n d c o m p le ti o n o f a s in g le ro u n d o f s e m i- c o n s e rv a tiv e r e p l ic a tio n in vitro. T h e in itia ti o n o f r e p lic a tio n f o rk s in th is s y s te m is d e p e n d e n t o n th e D N A te m p l a te b e in g a s s e m b le d in to f u n c tio n a l n u c l e i u n d e r g o in g a f u r th e r ro u n d in vitro. R e p li c a te d n u c l e i a re o n ly c a p a b le o f o f s e m i- c o n s e r v a ti v e re p l ic a tio n o n c e th e i r n u c l e a r e n v e lo p e h a s b e e n p e rm e a b i lis e d , a n e v e n t th a t n o r m a ll y o c c u r s a t m ito s i s in th e c e ll c y c l e . T h e s e re s u lts h av e a llo w e d u s to p ro p o s e a g e n e ra l m o d e l f o r th e w ay th a t D N A r e p l ic a tio n is c o n tro ll e d w ith in th e e u k a ry o tic c e l l c y c l e . Materials and methods E x t r a c t s w e re p re p a re d a s d e s c ri b e d b y B l o w a n d L a s k e y ( 1 9 8 6 ) , w i th th e m o d i f i c a ti o n s d e s c ri b e d b y B lo w an d L ask e y (1 9 8 8 ). F l o w c y t o m e t ry a n d u s e o f b i o ti n y l a te d d U T P w e re a s d e s c ri b e d b y B l o w a n d W a ts o n ( 1 9 8 7 ) . D e n s i ty s u b s ti tu ti o n e x p e ri m e n ts w e re a s d e s c ri b e d b y B l o w a n d L a s k e y ( 1 9 8 6 ) . P ro c e d u r e s f o r re - re p l i c a ti n g n u c l e i f o rm e d in vitro w e re a s d e s c ri b e d by B lo w an d L ask ey (1 9 8 8 ). Results N uclear assembly in the cell-free system On f e r ti li s a tio n , th e X enopus eg g e m e rg e s fro m its a rr e s t at se c o n d m e io ti c m e ta p h a s e , a n d e n te r s in te rp h a s e o f th e f i rs t c e l l c y c l e . T h e m a te rn a l a n d p a te rn a l c h ro m o s o m e s a re th e n a s s e m b le d in to p ro n u c l e i p r io r to th e o n s e t o f D N A s y n th e s is ( G r a h a m , 1 9 6 6 ) . L o w - s p e e d s u p e rn a ta n ts o f c ru s h e d e g g s c a n s u p p o rt th e a s s e m b ly o f d e m e m b r a n a te d s p e rm c h ro m a ti n in to a p p a re n tly n o rm a l p ro n u c l e i ( F i g . 1; L o h k a a n d M a s u i, 1 9 8 3 ) . U n d e r th e e l e c tr o n m ic ro s c o p e , th e s e n u c le i c a n b e s e e n to Control ofDNA replication in Xenopus 185 b e su rro u n d e d b y a d o u b le u n i t e n v e lo p e , s tu d d e d w ith n u c le a r p o r e s ( L o h k a a n d M a s u i, 1984; 1983, et al. B lo w 1987; a c c u m u la te s o lu b le n u c le a r p r o te in s et al. Fo rb e s X enopus eg g s is (1983) hav e a s s e m b le d sh o w n in to Sh e e h an in vitro th a t et al. 1988). et al. (N ew m e y e r b a c te r io p h a g e s tr u c tu r e s Su c h n u c le i can 1 9 8 6 b). D N A ( ‘ p s e u d o - n u c le i’ ) m i c r o i n je c t e d r e s e m b lin g in to n o rm a l n u c le i a s s e m b le d f r o m c h r o m o s o m a l D N A . S u c h s tr u c tu r e s a re a ls o a s s e m b le d f r o m n aked in vitro D N A 1 9 8 7 ; B lo w et al. et al. (N ew m ey er 1 9 8 7 ; B lo w et al. 1 9 8 6 a; B l o w an d L ask ey , 1986; N e w p o r t, 1 9 8 8 ) . P s e u d o - n u c le i a re s u rro u n d e d b y a d o u b le u n i t e n v e lo p e s tu d d e d w ith n u c le a r p o r e s a n d lin e d b y a la y e r o f la m in s ( N e w m e y e r et al. 1 9 8 6 a; N e w p o r t , 1 9 8 7 ) . P s e u d o - n u c l e i c a n a c c u m u l a t e s o l u b l e n u c l e a r p r o t e i n s in vitro (N ew m ey er et al. 1 9 8 6 a). Initiation o f DNA replication Sp e rm in v i tr o c h r o m a t i n is e f f i c i e n t l y r e p l i c a t e d i n t h e s e e x t r a c t s ( B l o w H u tc h is o n et al. te m p l a te D N A 1987). A f te r a p r e - s y n th e s is is r e p lic a te d o v e r 4 - 6 h ( B lo w la g (B lo w an d L ask ey , 1986). ab o u t 1 h, 70-100% o f th e a n d L a s k e y , 1 9 8 6 ) . T h e p r e - s y n th e s is la g c o r r e s p o n d s a p p r o x i m a t e l y t o t h e t i m e r e q u i r e d f o r m a tio n of an d L ask e y , 1986; F ig . 1 f o r c o m p le te n u c le a r e n v e lo p e sh o w s th a t in c o r p o r a tio n of th e th y m id i n e a n a lo g u e b i o t i n - 1 1 - d U T P o n ly o c c u r s in f u lly a s s e m b le d n u c le i ( B l o w a n d DNA PHASE BI OTIN A 0 h B 0-5 h C 2-5 h D 2-5 h + APHI D F i g . 1 . A s s e m b l y o f p ro n u c l e i f r o m s p e rm c h r o m a ti n i n c u b a te d in e g g e x tr a c t. D e m e m b ra n a te d Xenopus s p e rm n u c le i w e re i n c u b a te d in th e c e l l - f r e e e x tr a c t f o r 0 ( A ) , 0 .5 ( B ) , o r 2 . 5 h ( C , D ) w ith th e th y m id in e a n a lo g u e b i o t i n - l l - d U T P . N u c l e i w e re th e n is o la te d a n d s ta i n e d w i th H o e c h s t 3 3 2 5 8 to s h o w to ta l D N A , v ie w e d u n d e r p h a s e - c o n tr a s t o p ti c s , o r s ta i n e d w i th T e x a s R e d - c o n ju g a te d s tr e p ta v id in to sh o w b i o ti n i n c o r p o r a ti o n in to n a s c e n t D N A . D , e x tr a c t s u p p le m e n te d w i th 3 0 f i g m l _ 1 a p h id ic o lin ( A P H I D . ) . S c a l e b a r , 2 0 Ju m . A l l p a n e ls a t th e s a m e m a g n i f i c a ti o n . R e p ro d u c e d f r o m 1987. B lo w a n d W a ts o n , 186 J. y. Blowet al. W a ts o n , 1 9 8 7 ) . B r d U T P d e n s i ty s u b s ti tu ti o n s h o w s th a t th e r e p r e s e n ts a s in g le c o m p le te ro u n d in vitro o f s e m i- c o n s e r v a tiv e r e p lic a tio n D N A s y n th e s is (F ig . 2; B lo w a n d L a s k e y , 1 9 8 6 ) . A lth o u g h r e p lic a tio n c o n tin u e s o v e r a p e rio d o f m o r e th a n 2 h no s i g n if i c a n t p o p u la tio n o f r e p l i c a ti v e i n te r m e d i a te s ( w i th a d e n s i ty b e tw e e n li g h t/ li g h t a n d h e a v y / l i g h t ) is o b s e r v e d . T h i s i m p l i e s t h a t o n g o i n g D N A s y n th e s is in vitto is d e p e n d e n t o n o n g o in g in itia tio n o f n e w r e p lic a tio n f o r k s , a c o n c lu s io n c o n f ir m e c . b y f lo w c y to m e tr y F ig . 2 . (se e b e lo w ). B r d U T P d e n s i ty s u b s ti tu ti o n e x p e r i m e n t, s h o w in g s e m i- c o n s e r v a ti v e re p l ic a ti o n o f s p e rm c h r o m a ti n in th e e x tr a c t. ( • ------ • ) D e m e m b r a n a te d Xenopus s p e rm n u c le i w e re in c u b a te d in e g g e x tr a c t f o r 2 ( A ) , 4 ( B ) o r 6 h ( C ) w i th B r d U T P a n d [ a '- 32P ] d A T P , an d D N A w a s th e n f r a c ti o n a te d o n C s C l d e n s i ty g ra d ie n ts . V e r tic a l a rro w s s h o w g ra d ie n t d e n s i ty : 1 .7 1 ( l ig h t/ li g h t, ( O ------ O ) M i n u s D N A L L ); 1 .7 5 ( h e a v y / li g h t, H L ); 1 .7 9 (h eav y / h eav y , H H i. c o n tr o l . In s e t to p a n e l C : a u to r a d io g ra p h o f re p l ic a te d D N A a f te r a g a ro s e g e l e le c tr o p h o r e s is . L a n e a , c o n d i ti o n s as d e n s i ty g r a d ie n t; la n e b , p lu s 1 0 / ig m l- 1 a p h i d ic o li n ; h o r iz o n ta l a rro w , 5 0 k b D N A and L ask e y , 1986. m a r k e r. R e p r o d u c e d f r o m B lo w Control ofDNA replication in Xenopus la c k o f h e a v y / h e a v y The D N A r e p li c a te d in a s i n g le i n c u b a ti o n in F ig . 2 s h o w s th a t n o in vitro. 187 sp e rm c h r o m a tin is r e ­ S i n c e r e p li c a tio n in th i s s y s te m is e f f ic ie n t, a n d in i ti a ti o n e v e n ts o c c u r o v e r a p e r io d o f m o r e th a n 2 h , a s i g n if i c a n t a m o u n t o f r e ­ r e p lic a te d D N A w o u ld b e e x p e c te d a f te r 6 h if i n i ti a ti o n e v e n ts o c c u r o n a ll s tr e tc h e s o f D N A w ith e q u a l p r o b a b i li ty . T h e la c k o f r e - r e p li c a tio n m e a n s th a t th e e x tr a c t is in s o m e w a y a b l e to d is tin g u i s h r e p li c a te d f r o m u n r e p lic a te d D N A to p e r m i t i n i ti a ti o n o n l y o n t h e f o r m e r . T h i s m i r r o r s t h e w a y t h a t e u k a r y o t i c c e l l s c o n t r o l i n i t i a t i o n to p r e v e n t r e - r e p l i c a ti o n in a s i n g le c e ll c y c l e . L i k e th e i n t a c t e g g ( H a r l a n d a n d L a s k e y , 1 9 8 0 ) , th e c e l l - f r e e s y s te m a ls o r e p l i c a te s n aked D N A in tr o d u c e d in to it ( B l o w an d et al. L a s k e y , 1 9 8 6 ; B lo w 1 9 8 7 ) . A f te r a p r e - s y n th e s i s la g s i m i l a r to th a t s e e n w ith s p e r m c h r o m a t i n , p l a s m id D N A m o le c u le s in vitro u n d e r g o s e m i- c o n s e r v a tiv e r e p lic a tio n w ith sp e rm c h r o m a tin , r e p lic a tio n is ( F i g . 3 ; B lo w u s u a lly lim ite d to in c u b a tio n . G e n u in e in itia tio n ( r a th e r th a n e lo n g a tio n f r o m d e m o n s tr a te d by th e a b ility of th e e x tr a c t to m o re e f f ic ie n tly th a t o f s p e r m in vitro , c h r o m a tin ; a s th e y d o in vivo s in g le ro u n d in each p r e - f o r m e d p r i m e r s ) is re - r e p lic a te c ir c u m s ta n c e s ( s e e b e lo w ) . R e p lic a tio n o f n a k e d D N A r e p lic a tio n ) th a n an d L a sk e y , 1 9 8 6 ). A s a D N A und er c e r ta in is le s s e f f ic ie n t ( le s s th a n 4 0 % la r g e r n a k e d D N A te m p la te s r e p lic a te ( M e c h a li an d K e a rs e y , 1 9 8 4 ) . Replication is dependent on nuclear assembly W h e n t h e e x t r a c t is d i v i d e d i n t o s o l u b l e a n d v e s i c u l a r c o m p o n e n t s , n e i t h e r f r a c t i o n is c a p a b le o f a s s e m b lin g F ig . 3. B rd U T P d e n s i ty ( • ------ • ) P la s m id [ a ,- 32P ] d A T P . n u c le i f ro m sp e rm s u b s tit u ti o n of c h r o m a tin p las m id (L o h k a DN A w a s th e n f r a c ti o n a te d on M a s u i, re p l ic a te d p U C m S 4 w a s i n c u b a te d in e g g e x tr a c t f o r 6 h DN A an d in 1984) e x tr a c t. w i th B r d U T P C s C l g ra d ie n ts . V e r tic a l a rro w an d sh o w s d e n s ity o f H L ( r e p l ic a te d ) D N A . ( O ------ O ) M i n u s D N A c o n tr o l . In s e t : a u to r a d io g ra p h o f re p l ic a te d DN A a f te r a g a ro s e g e l e le c tr o p h o r e s is . Lan e a, D N A i n c u b a ti o n ; la n e b , D N A c u t w i th m e th y l a ti o n - s e n s iti v e e n z y m e w ith BglI I , w h ic h lin e a ri s e s th e n a ti v e p l a s m id . H o r iz o n ta l a rro w s s h o w o f p las m id f o rm s I, II an d III, and a s is o la te d a f te r Dpn\\ la n e c , D N A cu t g e l s lo t, p o s i ti o n p o s i ti o n o f h i g h m o le c u la r w e ig h t l in e a r D N A ( H M W L ) . R e p ro d u c e d f r o m B lo w a n d L a s k e y , 1 9 8 6 . or 188 jf. jf. Blow et al. n aked D N A ( N e w p o r t, c h r o m a tin ( S h e e h a n 1 9 8 7 ); an d et al. n e ith e r f r a c tio n is c a p a b le o f r e p li c a tin g s p e im 1988) o r n aked D N A ( N e w p o r t, 1 9 8 7 ) . O n r e c o m b in a tio n o f t h e s o l u b l e a n d v e s i c u l a r f r a c t i o n s , a ll t h e s e a c t i v i t i e s a r e r e c o n s t i t u t e d . F u r t h e r , u se o f th e th y m id in e a n a lo g u e p la c e in n u c le i a s s e m b le d f r o m b io tin - 1 1 - d U T P sp e rm a n d in p s e u d o - n u c le i a s s e m b le d f r o m s h o w s th a t D N A s y n th e s i s ta k e s c h r o m a tin ( F i g . 1 ; B lo w a n d W a ts o n , 1 9 8 7 ) , et al. 1 9 8 8 ) . T h e s e r e s u i ts n aked D N A ( B lo w s u g g e s t th a t f o r D N A to b e r e p l i c a te d in e g g c y to p l a s m i t m u s t f ir s t b e a s s e m b le d in to a n u c le u s . To in v e s tig a te r e p lic a te d W a ts o n , in p o in t f u r th e r , p r e s e n c e o f th e D N A in e g g e x tr a c t w ith h as r e p lic a te d , an d w e p e rfo rm e d th y m id in e 1 9 8 7 ) . F ig . 4 , p a n e ls a a n d 1 . 5 h in c u b a tio n sp e rm th is th e f lo w c y to m e tr y a n a lo g u e b i o t i n - l l - d U T P b , s h o w s a p o p u la tio n o f s p e r m on n u c ie i ( B lo w an d n u c le i a f te i a b i o t i n - l l - d U T P . A t th i s s ta g e a b o u t h a lf t a e ab o u t h a lf th e n u c le i hav e in c o r p o r a te d b io tin ( F i g . 4 B ) . F i g . 4 C s h o w s th i s p o p u la tio n o f n u c l e i a n a ly s e d b y f lo w c y to m e tr y . T l e sp e rm n u c le i, in itia lly h a p lo id , r e p lic a te D N A u n til th e y h a v e a c h ie v e d a d ip lo id D N A c o n t e n t . T h e y in c o r p o r a te b i o t i n in p r o p o r ti o n to t h e e x t e n t o f r e p l i c a ti o n th s y h a v e u n d e r g o n e . H o w e v e r , o n c e th e y h a v e r e a c h e d th e d ip lo id D N A Number BI O T I N F ig . 4 . c o n te n t, D N A F l o w c y to m e tr i c a n a l y s is o f s p e r m c h r o m a ti n re p l ic a te d b io tin y l a te d d U TP. e x tr a c t f o r l . S h D e m e m b r a n a te d Xenopus s p e rm n u c le i invitro in th e p r e s e n c e o f w e re in c u b a te d in eg g w i th b i o t i n - 1 1 - d U T P . N u c l e i w e re is o la te d a n d s ta in e d w i th a D N A - b in d i n g f l u o ro c h r o m e ( A ) an d f l u o r e s c e n t- la b e l le d s tr e p ta v id in ( B ) , a n d th e n a n a ly s e d b y f lo w c y to m e tr y ( C ) . A , B . F l u o r e s c e n c e m ic r o s c o p y o f s ta in e d n u c le i. S c a l e b a r , 5 0 ^ m . A p p ro x im a te ly 5 0 % o f th e te m p l a te D N A h a s b e e n r e p l ic a te d d u ri n g th e i n c u b a ti o n . C . T h e p o p u l a tio n o f n u c l e i is d is p la y e d in th e f o r m o f a c o n to u r p l o t; a x e s re p re s e n t b io tin a n d D N A c o n te n ts o f in d iv id u a l n u c le i. I N a n d 2 N g iv e h a p lo id a n d d ip l o id D N A c o n te n ts . S ta n d a rd s in g l e - d im e n s i o n a l f r e q u e n c y p lo ts f la n k th e c o n to u r p l o t. d u c e d f r o m B lo w a n d W a ts o n , 1 9 8 7 . R e p ro ­ 189 Control ofDNA replication in Xenopus s y n th e s is a n d b io tin in c o r p o r a tio n c e a s e , c o n s is te n t w ith th e d e n s ity s u b s titu tio n e x p e ri m e n ts ( F i g . 2 ) . M o s t n u c le i in F ig . 4 C a re e ith e r h a p lo id o r d ip lo id , w ith a re la ti v e ly s m a ll p ro p o rtio n in ‘ S p h a s e ’ in b e tw e e n . T h i s s h o w s th a t in d iv id u a l n u c l e i re p l ic a te re la tiv e ly f a s t in vitro (1 h o n a v e r a g e ) . H o w e v e r, d i f f e re n t n u c l e i s ta r t to re p l ic a te ( ‘ e n te r S p h a s e ’ ) a t d if f e r e n t tim e s o v e r m o r e th a n 1 .5 h , a l th o u g h th e y a ll s h a re th e s a m e c y to p la s m i c e n v ir o n m e n t. T h i s is c o n s is te n t w ith d e n s ity s u b s titu tio n e x p e r ­ im e n ts ( e .g . F i g . 2 ) th a t s h o w in itia ti o n o c c u r r in g o v e r a p e rio d g r e a te r th a n 2 h . T h e a s y n c h ro n y o f e n tr y in to S p h a se is lik e ly to be d u e to a s y n c h ro n y o f n u c le a r f o r m a tio n ( B l o w a n d L a s k e y , 1 9 8 6 ) . P u l s e la b e l li n g n u c le i w ith b i o tin - 1 1 - d U T P s h o w s th a t as n u c l e i e n te r S p h a se , e a c h o n e u n d e rg o e s a b u r s t o f a b o u t in itia tio n s ( B l o w a n d W a ts o n , e x tr a c t u n d e rg o th is 1 0 0 0 0 0 s y n c h ro n o u s o r n e a r- s y n c h ro n o u s 1 9 8 7 ) . H o w e v e r, d i f f e re n t n u c l e i in th e s a m e e g g b u r s t o f in itia ti o n s a t d if f e r e n t tim e s . So m e s ig n a l m u s t a p p a re n tly a c t lo c a l ly th ro u g h o u t a s in g le n u c l e u s to c o - o rd in a te th is b u r s t. T h i s s ig n a l c o u ld p la u s ib ly b e th e a c c u m u la tio n o f a s o l u b le n u c l e a r p r o te in w i th in th e n u c le u s o n c e n u c l e a r e n v e lo p e f o rm a tio n is c o m p le te . T h e s e r e s u lts d e m o n s tr a te th a t n u c le a r o r g a n is a tio n is a f u n d a m e n ta l c o m p o n e n t o f D N A r e p lic a tio n c o n tr o l in th is s y s te m . Entry into mitosis in v itro W h e n th e c e l l - f r e e e x tr a c t is p e r m itte d to s y n th e s is e p ro te in in vitro, it is c a p a b l e o f p a s s in g in to a m ito s i s - li k e s ta te ( L o h k a a n d M a s u i, 1 9 8 3 ; H u tc h is o n et al. 1987, 1 9 8 8 ; B lo w a n d L a s k e y , 1 9 8 8 ) . F i g . 5 s h o w s a ty p ic a l tim e c o u r s e o f th e s e e v e n ts vitro. in M o s t n u c l e i h a v e b e e n a s s e m b le d b y 1 h ( F i g . 5 a - d ) , a n d D N A s y n th e s is th e n o c c u rs o v e r th e n e x t 2 h ( F i g . 5 e - h ) . I f p r o te in s y n th e s is is p re v e n te d b y c y c l o h e x is ta te ( F i g . 5 i , j) . H o w e v e r, if p r o te in s y n th e s is is p e rm itte d Gz ( i n te r p h a s e ) in vitro, a f te r 4 - 5 h th e n u c l e a r e n v e lo p e ( F i g . 5 k , 1). an d m id e , r e p li c a te d n u c le i re m a in in a d is a p p e a rs c h r o m a ti n c o n d e n s e s a n d th e H u tc h is o n c o lle a g u e s h a v e e x tr a c t p re p a ra tio n so th a t e x tr a c ts c a n p a s s th ro u g h s e v e ra l c e ll c y c l e s ( H u tc h i s o n et al. re f in e d in vitro 1 9 8 7 , 1 9 8 8 ) . T h e s e e x tr a c ts c a n o s c illa te b e tw e e n in te rp h a s e an d m ito s is o n a ti m e s c a le v e ry c lo s e to th a t o f th e o s c illa tio n ( 1 9 8 9 ) h a v e s h o w n th a t s y n th e s is o f c y c l in p r o te in in vitro in vivo. M in s h u ll et al. is r e q u ir e d f o r th e e x tra c t to p a s s f ro m in te rp h a s e in to m ito s is . The prevention o f re-replication W h y d o e s n ’t D N A re p l ic a te a s e c o n d tim e in th e c e l l- f r e e s y s te m ? F i g . 6 s h o w s th a t th is is d u e to s o m e f e a tu re o f r e p li c a te d n u c l e i ( B l o w e x p e ri m e n t s p e r m n u c l e i w e re in c u b a te d an d in c u b a te d in f r e s h e x tr a c t. in vitro B rd U T P a n d L a s k e y , 1 9 8 8 ) . In th is f o r v a rio u s p e r io d s , th e n is o la te d d e n s i ty s u b s titu tio n w as th e n u se d to d e te r m in e w h e th e r D N A th a t re p li c a te d in th e f i rs t e x tr a c t c o u ld b e r e - r e p li c a te d in th e s e c o n d e x tr a c t. W h e n in ta c t n u c l e i a re tra n s f e rr e d f ro m e x tr a c t in in te rp h a s e , th e re p lic a te d D N A is in c a p a b le o f re - r e p li c a ti o n in f r e s h e x tr a c t. H o w e v e r, o n c e th e e x tr a c t h a s p a s se d in to m ito s i s , th e c h ro m o s o m e s tra n s f e rr e d to f r e s h e x tr a c t b e c o m e 190 y. y. Blowet al. u n d e rg o in g c a p a b le of ( F ig . 6, 7A ). N u c le i s y n th e s i s in h ib ito r (M in s h u ll et al. a n o th e r fro m c o m p le te e x tr a c ts c y c lo h e x im id e 1 9 8 9 ) , re m a in ro u n d b lo c k e d ( F ig . 5) of in or s e m i- c o n s e r v a tiv e in te r p h a s e by e ith e r d e s tr u c tio n in c a p a b le o f r e - r e p lic a tio n of in f r e s h re p lic a tio n by th e p r o te in c y c lin m RN A e x tr a c t ( F ig . 6 , 7B ). A n u m b e r o f d i f f e r e n t c h a n g e s o c c u r to D N A d u r in g m ito s is , s u c h as n u c le a r e n v e lo p e b re a k d o w n , c h r o m a tin c o n d e n s a tio n a n d h is to n e p h o s p h o r y la tio n . F ig . 7 s h o w s e x p e r i m e n t s t o d e t e r m i n e w h i c h o f t h e s e m i t o t i c f e a t u r e s is c a p a b l e o f a l l o w i n g D N A in vitro to r e - r e p l i c a t e i n t h e c e l l - f r e e s y s t e m . S p e r m c h r o m a t i n w a s r e p l i c a t e d in th e p r e s e n c e o f c y c l o h e x im i d e to m a in ta in th e D N A in in te r p h a s e n u c le i. T h e s e n u c le i w e r e th e n is o l a te d , g iv e n v a r i o u s t r e a tm e n ts , a n d th e n a s s a y e d f o r th e i r a b i lity to r e - r e p lic a te in fre sh n u c le a r e n v e lo p e , s u c h e x tr a c t. T r e a tm e n ts as p u n c tu r in g th a t cau sed it w ith l y s o l e c i th i n p e r m e a b ilis a tio n of th e ( F i g . 7 D ) o r d ig e s tin g it w ith p h o s p h o li p a s e ( F i g . 7 E ) , p e r m i tte d a s i g n i f i c a n t n u m b e r o f i n te r p h a s e n u c le i to re - r e p lic a te in fre sh e x tr a c t. T r e a tm e n ts th a t do not p e rm e a b ilis e th e n u c le a r e n v e lo p e , s u c h a s p h o s p h a ta s e tr e a tm e n t ( F i g . 7 F ) , le a v e th e n u c le i s till u n a b le to r e ­ r e p li c a te . T h e p e r m e a b i li s e d n u c le i a re r e - a s s e m b le d in th e f r e s h e x tr a c t b e f o r e r e ­ r e p li c a tio n o c c u r s . T h e s e r e s u l ts s h o w th a t th e p e r io d ic a s s e m b ly a n d d is a s s e m b ly o f t h e n u c l e a r e n v e l o p e p l a y s a m a jo r p a r t i n c o n t r o l l i n g D N A r e p li c a tio n w ith in th e e u k a r y o ti c c e ll c y c l e . Con trol ( —c y c l o h e x i m i d e ) DNA + C y c lo h e x im id e DNA a *• 1h # b 1“ ■ o k ■ L> e c C 1 1 1 ’ I g r f u h • ■ * F ig . 5 . n a te d 5h / J • V . j 5 ’ rV /- . O w* f \ h . Phase V . . 4 . 3 s Phase k ' /• 4 r _ P r o te i n s y n th e s is p e r m i ts e x tr a c t to p r o g re s s in to a m i to s i s - l i k e s ta te . D e m e m b r a - Xenopus s p e rm n u c le i w e re in c u b a te d in e g g e x tr a c t f o r 1 ( a , b , c , d ) , 3 ( e , f , g , h ) , o r ( i , j, k , l ) , p l u s ( c , d , g , h , k , l ) o r m i n u s ( a , b , e , f , i , j) 1 0 0 ,u g m l _ 1 c y c l o h e x i m i d e . N u c le i w e re v ie w e d w e t b y H o e c h s t 3 3 2 5 8 U V f l u o r e s c e n c e ( a , c , e , g , i , k ) o r b y p h a s e c o n tr a s t o p ti c s ( b , d , f , h , j, l ) . S c a l e b a r , 2 0 ,u m . < d 191 Control ofDNA replication in Xenopus Discussion E x tr a c ts o f and M asu i X enopus e g g s , p r e p a r e d b y m e t h o d s s i m i l a r to t h o s e d e s c r i b e d b y L o h k a ( 1 9 8 3 ) , s u p p o r t th e D N A in vitro 1980; M e c h a li ( B lo w an d an d in itia tio n of D N A 1987). B e fo re 1984), th e eg g in itia tio n o c c u rs, 1 9 8 7 ; B lo w R e p lic a te d d o u b l e - s tr a n d e d can r e p lic a te th e te m p la te ( B lo w an d L ask e y , p la s m id D N A a n d L a s k e y , 1 9 8 6 ; B lo w m u st be a s s e m b le d in to a a n d L a s k e y , 1 9 8 6 ; N e w p o r t, 1 9 8 7 ; 1987; Sh eeh an et al. 1 9 8 8 ; B lo w et al. 1988). n u c le i a re n o t c a p a b le o f r e - r e p li c a tio n u n til th e n u c le a r e n v e lo p e h a s b e e n p e rm e a b ilis e d re p lic a tio n a n d W a ts o n , e x tr a c t s e q u e n c e s ( B lo w f u n c tio n a l n u c le u s b y th e c e l l - f r e e s y s te m H u tc h is o n , on L a s k e y , 1 9 8 6 ) . L ik e th e in ta c t e g g ( H a r la n d K e a rse y , m o le c u le s w ith o u t r e q u ir in g s p e c ia l D N A et al. r e p lic a tio n in s o m e w a y ( B lo w is c o n tr o l l e d a n d L a s k e y , 1 9 8 8 ) . T h i s im p lie s th a t D N A in th i s s y s te m by f a c to r s b e tw e e n n u c le u s a n d c y to p l a s m . A th e c o m p a r tm e n ta li s a ti o n o f r e p li c a tio n s im p le m o d e l f o r h o w t h i s c o u l d w o r k is o u tlin e d in F i g . 8 . A n e s s e n ti a l in i ti a ti o n w h e n it is a d d e d f a c to r ( s ) w h ic h to t h e e g g e x t r a c t ; w e c a ll L ic e n c in g in vivo, th is w o u ld F a c t o r b i n d s to D N A h a p p e n w h e n th e n u c le a r e n v e lo p e is b r o k e n d o w n a t m i to s i s ( F i g . 8 A ) . In i ti a ti o n o f r e p l i c a ti o n d o e s n o t o c c u r a t th i s s ta g e s i n c e th e te m p l a te D N A i s n o t i n a n u c l e u s . T h e n e x t s t a g e ( F i g . 8 B ) is n u c le a r a s s e m b l y . L i c e n c i n g F a c t o r is u n a b l e to c r o s s th e n u c l e a r e n v e lo p e , s o th a t it is p re se n t in th e n u c le u s o n ly w h e re bound to D N A . A t so m e s ta g e a f te r T im e o f tr a n s f e r ( h ) F i g . 6 . T h e a b il ity o f re p l ic a te d D N A to r e - r e p l ic a te w h e n a d d e d to f r e s h e x tr a c t c h a n g e s w ith ti m e a n d d e p e n d s o n p r o te in s y n th e s is . D e m e m b r a n a te d Xenopus s p e rm n u c le i w e re in c u b a te d in e g g e x tr a c t w ith B r d U T P a n d [ar-32P ] d A T P f o r 1 - 5 h ; n u c l e i w e re th e n is o la te d a n d a d d e d to f r e s h e x tr a c t c o n ta in i n g B r d U T P , w h e re th e y w e re in c u b a te d f o r a f u r th e r 5 h. DN A w as is o la te d and f r a c ti o n a te d on C sC l d e n s i ty g ra d ie n ts . The p r o p o rtio n o f re - r e p l ic a te d ( H H ) D N A w a s th e n m e a s u r e d . ( ♦ - - - - - - - ♦ ) F i r s t a n d s e c o n d e x tr a c ts c o n ta in e d 1 0 0 / Jg m l - c y c lo h e x im id e . (El------ □ ) Firs t an d u n tr e a te d a n d a c tiv e in p ro te in s y n th e s is . E i th e r f i rs t ( • ) , o r s e c o n d c o n ta in e d c y c l o h e x i m i d e . R e p ro d u c e d f r o m B lo w a n d L a s k e y , 1 9 8 8 . se c o n d e x tr a c ts ( O ) e x tr a c ts o n ly th e 192 jf. J. Blow et al. o f n u c le a r a s s e m b ly , s o m e s ig n a l s p r e a d s th r o u g h o u t th e c o m p le tio n e n v iro n m e n t (F ig . 8 C ) c a u s in g L ic e n c in g F a c to r ( F i g . 8 D ; B lo w s u p p o r tin g a s in g le in itia tio n T h e r e f o r e o n c e th e D N A a b u rst of in itia tio n e v e n ts at in tr a n u c b a r s i te s of bound a n d W a ts o n , 1 9 8 7 ) . L i c e n c i n g F a c to r is c a p a b le o f e v e n t, a f te r w h ic h it is in a c tiv a te d or d e s tr o y e d . w ith i n th e n u c l e u s h a s f u l ly r e p l i c a t e d , th e r e is n o m o r e L i c e n c i n g F a c to r w ith in th e n u c le u s . L i c e n c i n g F a c t o r s till p r e s e n t in th e c y to p la s m c a n n o t g a in a c c e s s to t h e D N A u n til th e n u c le a r e n v e lo p e is p e r m e a b ilis e d , a p r o c e s s n o r m a ll y ta k in g p la c e d u r in g m i to s is . S lig h tly m o r e c o m p lic a te d v e r s io n s o f th is c o m p a r tm e n ta lis a tio n th e o r y can be d e v is e d w h e r e b y a n in h ib ito r o f r e p lic a tio n b u ild s u p in th e n u c le u s , a n d c a n o n ly b e . P ro te in sy n th e sis A X 1 V i . l * * i < z Q •o . HH HL 1 1 C C y c lo h e x im id e + —1_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ f r - r w - - 0 - - - - - - - - - - - - -- - - - - - - - - - - - - i A l HL . . HH B C y c lo h e x im id e + M o c k tre a tm e n t ' iu . HH HL . 1 1 D . C y c lo h e x im id e + L y so le c ith in M PF r^T-- --- i V r i1a-x- D - -U - -JU - - -r)U>i'WW — ,—— ' ----- HH HL ^ ^ HL HH E ; F i C y c lo h e x im id e + g V M e littin / P h o sp h o lip ase C y c lo h e x im id e + P h o sp h atase ‘V ^ r r i v n m n x x y i ^ . Fra c tio n n o . F ig . 7 . N u c l e a r e n v e lo p e p e rm e a b i l is a ti o n b e tw e e n i n c u b a tio n in tw o s u c c e s s iv e e x tr a c ts a llo w s r e - r e p l i c a ti o n o f re p l ic a te d n u c le i ( s e e n a s H H D N A ) . ( A ) N u c l e i re p l ic a te d in e x tr a c t a c ti v e in p r o te in s y n th e s is . ( B - F ) N u c l e i r e p lic a te d in th e p r e s e n c e o f c y c l o h e x i m id e , a n d tr e a te d w i th : B , m o c k - tr e a tm e n t; C , m a tu r a ti o n - p r o m o ti n g f a c to r ; D , ly so l e c i th i n ; E, m e l l i ti n an d p h o s p h o l ip a s e ; F, p h o s p h a ta s e . The p e r c e n ta g e of to ta l 32P - l a b e ll e d D N A in e a c h f r a c ti o n is g iv e n . R e p ro d u c e d f r o m B lo w a n d L a s k e y , 1 9 8 8 . Control ofDNA replication in Xenopus 193 re le a s e d b y n u c le a r e n v e lo p e p e r m e a b ilis a tio n . H o w e v e r , th e m o d e l p r e s e n te d ( F ig . 8) is th e s im p le s t o n e th a t c a n a c c o u n t f o r a ll th e c a p a b le o f a c c o u n tin g f o r a n u m b e r o f o b s e r v a tio n s m a d e W h e n G i an d G o f in itia tin g 2 D N A d a ta . T h i s m o d e l a ls o c e lls a re f u s e d , th e G i n u c le u s , b u t n o t th e G 2 (R ao 1 9 8 0 ) . T h i s r e s u lt w o u ld b e p r e d ic te d h y b rid fro m e n te r s is in vivo. s y n th e s is b e f o r e th e h e re m ito s is n u c le u s is c a p a b le an d Jo h n s o n , o u r th e o r y , s in c e o n ly th e G j n u c le u s ( F i g . 8 B ) a n d n o t th e G 2 n u c le u s ( F i g . 8 E ) c o n ta in s L ic e n c in g F a c to r . S im ila r ly , G 2 H e L a c e ll n u c l e i m u s t b e p r e p a r e d u s i n g d e te r g e n t in o r d e r f o r th e m to b e c a p a b l e o f r e p l i c a t i o n i n t h e f i r s t c e l l c y c l e a f t e r m i c r o i n je c t i o n i n t o al. X enopus eg g s (D e R o ep er et 1977). N o t a ll e u k a r y o te s u n d e r g o f u ll n u c le a r e n v e lo p e b r e a k d o w n a t m i to s is . H o w e v e r , th e y c o u ld s till c o n t r o l D N A r e p l i c a ti o n in th e m a n n e r s u g g e s te d a b o v e if th e i r n u c le i u n d e rg o a tr a n s ie n t p e r m e a b ilis a tio n + + + + to + a L ic e n c in g + + F a c to r d u r in g m ito s is . P o s- + + B o C/ 3 03 D Fig . 8 . M o d el (A ) L ic e n c in g fo r th e F a c to r c o n tr o l (+ ), of b in d s DN A to r e p l ic a ti o n DN A . (B) in DN A th e Xenopus e a rly e m b ry o . is a sse m b le d i n to n u c le u s . ( C ) In i ti a ti o n a t l ic e n s e d s ite s o c c u r s c o o rd in a te l y th r o u g h o u t i n d i v i d u a l n u c le i ( B l o w a n d W a ts o n , 1 9 8 7 ) . ( D ) L i c e n c i n g F a c to r is i n a c ti v a te d b y i n iti a ti o n o r th e p a s s a g e o f a re p l ic a ti o n fo rk . (E) Fu lly r e p lic a te d DN A c a n n o t r e - r e p l ic a te due to e x c lu s io n of L i c e n c i n g F a c t o r f r o m D N A b y th e n u c le a r e n v e lo p e . B r e a k d o w n o f th e n u c le a r e n v e lo p e d u ri n g m i to s i s a llo w s a c c e s s o f th e L i c e n c i n g F a c to r to th e D N A , to p r e p a re i t f o r D N A s y n th e s is in th e n e x t c e ll c y c l e . R e p ro d u c e d f r o m B lo w a n d L a s k e y , 1 9 8 8 . 194 J. jf. Blow et al. o f a n u c le a r s e s s io n e n v e lo p e , th e u se o f m u l tip le r e p li c a tio n o r ig in s a n d th e p re v e n tio n o f re - r e p li c a ti o n in a s in g le c e l l c y c l e all s e e m to b e g e n e ra l f e a tu r e s o f e u k a r y o te s . C o m p a rtm e n ta li s a tio n o f e s s e n tia l r e p lic a tio n f a c to rs d u rin g th e c e ll c y c le p ro v id e s a p o s s i b l e e x p l a n a tio n o f w h y th e s e f e a tu re s all o c c u r to g e th e r. 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