trna tu gtp trnancrna.jp/nl/rna3-1.pdfktqt 1 s f Ñ Å ~ ¸ 6sob!cjpmphz 7 6 } h ¾ æ j Ð hrna x *...

Joachim Frank HHMI, Wadsworth CentertRNA A/T site A site P site

/ tRNA tRNA EF-Tu GTP tRNA Joachim Frank

GTPase-associated center (GAC) action brings codon and anticodon together.Codon-anticodon interaction stabilizes the twisted anticodon conformation. Cognate binding leads to accommodation.

Bob Grassucci tRNA Michael Watters Joachim Frank

the decoding process is facilitated by a dynamic interply between the ribosome and the tRNA in which the tRNA acts like a molecular spring .(nature structural biology 10: 899-906, 2003)

Marianne Grunberg-Manago PNPase

RNA RNA

ncRNA/ncDNA

Mechanisms of mRNA decay

NMD nonstop decay, tmRNA

mRNA decay

decay degra-

dosome

PNPase

PNPase Marianne Grunberg-Manago

Marianne Severo Ochoa

PNPase

Ochoa RNA

PNPase

Marianne

PNPase

Marianne

Marianne "Enjoy Paris. Continue in Tokyo"

Marianne

Institut de Biologie

Physico-Chimique (CNRS)

Marianne

Marianne Grunberg-Manago PNPase

Marianne

PNPase RNA

PNPase

PNPase mRNA decay

PNPase

Yoshikazu NAKAMURA

Marianne

RNA non-coding

Kimitsuna WATANABE

Non-coding RNA

RNA snRNA snoRNA

RNomics

Non-coding RNA

RNomics

��

Non-coding RNA

boxC/D snoRNA

Non-coding RNA

SRP RNA

coding RNA

Non-coding RNA

transcriptome

Non-coding RNA

Kouji NAKAMURA

Non-coding RNA

non-coding RNA

snoRNA, Xist

non-coding RNA RNA RNAi/miRNA

mRNA non-coding RNA

non-coding

coding RNA

Xist RNA

snoRNA

non-coding RNA

non-coding RNA RNA

omt1,2,3

non-coding RNA

BS190RNA mRNA 5

coding RNA

non-coding RNA

Hitoshi ONOUCHI

��

RNA Network

Newsletter volume 2 number 2

Akira NAKAMURA

McGillMedical Research Council

Yuji KAGEYAMA

Howard Hughes Medical Institute

Baylor

EMBL Anne

Ephrussi

UP RNA

non-cording RNA RNAi

RNA RNA

non-cording

RNA RNAi RNA

RNA RNAi

Tamaki YANO

European Molecular Biology Laboratory (EMBL)

��

non-coding RNA

RNA mRNA

RNA interference

Cell Dicer

RNA RNAi /

PTGS DNA

TGS nt

Yusuke Hokii

mRNA tRNA rRNA

Hisashi KIRIU

HOTRNA

Kiyokazu AGATA

Group Director

URLhttp://www.cdb.riken.go.jp/erb/

��

James McCloskey Univ. of Utah

tRNA tRNA

SINE LINE SINE

Mathias Sprinzl Univ. of

Bayreuth

DNA Hef

Hef dicer

Jens Nyborg Univ.

of Aarhus EF

RRF tRNA

tmRNA GTPase,YjeQ

50S GTPase center

GTPase 30S

30S GTPase center

Linda L. Spremulli

Univ. of North Carolina IF2

McCloskey Spremulli

s2T tRNA

in vitro

SerRS tRNASer

Spremulli

Closing remarks

Sprinzl

McCloskey

Sprinzl

Spremulli Nyborg

Taeko KOMODA

McCloskeyMcCloskey

RNA biology

Hooray

Uppsala

Gustav Vasa

Eklundshof

reception

will let you in!

pick up

information

Greek Italian Restaurant Alexandria

Greek Italian

Where is our beer?

Swedish Greek

RNA Biology

Chinese Thai

Lunch menu

It does not happen so often

sport pub restaurant

Sweden vs. Bulgaria

Sweden

receipt

Prof. Leif Kirsebom

Dept. of Cell and Molecular Biology, Uppsala Univ.

Versatility of RNA

Dr. Kunio Inoue Faculty of Science, Kobe Univ.

Mechanisms of alternative RNA splicing

Dr. Marie Ohman

Dept. of Molecular Biology & Functional Genomics, Stockholm Univ.

RNA editing by adenosine deamination in the mammalian brain

Dr. Naoyuki Kataoka

Institute for Virus research, Kyoto Univ.

Analysis of the post-splicing recycling pathway in the nucleus

dinner time JSPS

Dr. Anders Virtanen

Poly(A)-specific ribinuclease (PARN):Connecting mRNA

poly(A) tail degradation to the 5 end located cap structure

Dr. Hitoshi Onouchi

Graduate School of Agriculture, Hokkaido Univ.

Nascent polypeptide-mediated posttranscriptional regulation

of the cystathione gamma-synthase gene in Arabidopsis

Dr. Mikiko Siomi

Institute for Genome Research, Univ. of Tokushima

Distinct roles for Argonaute proteins in small RNA-directed

RNA cleavage pathways in Drosophila

Dr. Gerhart Wagner

Small RNA encoded by the E. coli chromosome

Dr. Fredrik Soderbom

Dept. of Molecular Biology, Swedish Agricultural Univ.

Non-coding RNAs in Dictyostelium discoideum

Dr. Akira Nakamura

Center for Developmental Biology, RIKEN

Spatio-temporal regulation of maternal RNA localization and

translation in Drosophila

Dr. Mikael Wikstrom Dept. of Molecular Biology, Umea Univ.

Role of ribosome-associated proteins in S rRNA

processing and ribosome maturation

Dr. Tsutomu Suzuki

Graduate School of Engineering, The Univ. of Tokyo

Biosynthesis and function of tRNA wobble modification

pick up

abstract

Concluding remark

Prof. Leif Isaksson JSPS

cocktail time champagne

dinner time

dinner

check out JSPS

Blue Hall

RNA Society meeting

RISC siRNA

souvenir shop

Nobel Museum

Nobel laureates

open theater

Watson Click

Nobel Museum

jet lag

non-alcohol

Stadshuset

Blue Hall Nobel

laureates

Golden Hall Blue Hall blue

Golden Hall

Nobel laureates dance

Golden Hall Blue Hall

Hotel Sheraton JSPS

JSPSJSPS JSPS

JSPSMs.

coffee shop Sushi Caf�

coffee shop

coffee table

mismatch

RNAi miRNA

Gerhart Wagner

small RNA

Dr. Fredrik Soderbom Dic-

tyostelium discoideum non-coding RNA

collaboration

RiddarfjardenMikiko C. SIOMI

Howerd Hughes Medical Institute

P.Sharp R.Roberts

PNAS Cell

Abelson tRNA

HeLa in vitro

in vitro

ApppG 5

RNA in

Mattaj kd kd

RNA transport

��

Sexlethal (Sxl) tansformer (tra) transformer (tra)

doublesex (dsx)

Sxl tra RNA

tra-mRNA

tra tra2 dsx-mRNA

Sxl pre-mRNA

Sxl mRNA

Maniatis

Baker McKeown

McKeown Your people are too fast

RNA closed meeting

Genes and Development Molecular and Cellular

Biology

Genes & Development

Exon Recognition Sequence

Exonic Splicing Enhancer

Yoshiro SHIMURA

RNA RNA

V STAT1 STAT2

ATP, dNTP cDNA 32P

RNA RNA

DNA DNA

Kaoru TAKEUCHI

Newsletter

RNA RNA

small RNA world tRNA world

tRNA The tRNA

Orgel Crick

JMB JMB

Cech Cell

Gilbert RNA

RNA RNA

��

The tRNA World 2003 Kloster BanzProf. Hildburg Beier

Nature

RNA RNA

RNA DNA

RNA RNA

RNA Rhodovulum

NAR Supplement

RNA RNA

transformer (tra)

Sex-lethal (Sxl)

in vitro selection RNA

Sxl tra

in vitro

��

Yo KIKUCHI

H. J. Gross

msl-2 Sxl msl-2

in vitro

Cold Spring Harbor

in vitro

nonsense-mediated decay

two-hybrid RNPS1

in vitro

Fox-1 F1

Eiji SAKASHITA

��

cynthia roretzi EST

Ciona intestinalis

Ciona savignyi EST

Phallusia mammillata

Kovelevski

RNA RNA

settle down

Kazuhiro W. MAKABE

RNA Network

Newsletter

RNA Network Newsletter

http://www.ra-bio.or.jp/

EST EST

alternaive splicing

dbProP

http://dbprop.nirs.go.jp/ SNP

NCBI dbSNP

AMSTL/CRIP dbSNP

dbProP AMSTL/CRIPSNP

alternative

alternative splicing

dbProP

alternative micro exon mRNA EST

ag gt -

mRNA surveillance nonsense mutation-

mediated mRNA decay; NMD

NCBI RefSeq

RefSeq

NMD cDNA

artifact

mRNA mRNA

head-to-head tail-to-tail

head-to-head -RACE tail-

to-tail -RACE

head-to-

head tail-to-tail

mRNA surveillance

CARD SGSH mRNACARD SGSH

RACE SGSHmRNA '-UTR CARD mRNA

FTSJ PSMC mRNAFTSJ PSMC

RACEFTSJ mRNA '-UTR PSMC mRNA '-UTR

head-to-head

mRNA tail-to-tail

mRNA RACE

miRNA siRNA

non-coding RNA

RNA Network

Newsletter

poly-cistronic

mRNA trans-splicing

non-coding RNA

mRNA mRNA

Toshiyuki SAITO

is downstairs

SDSPAGE

RNA UTP

CSHL RNA processing

meeting

Southern blot

Oh! You

are the Bottleman Nice

to meet you

hnRNP A

Cell hnRNP

Mutsuhito OHNO

J. D. Watson

The Double Helix

tRNAPhe

Science

Advances in Biophysics, Vol. ,

W. Hol

T. Steitz tRNAGln Gln-RS

D. Moras tRNAAsp Asp-RS

Tom Dino

Dino Dino

tRNAAsp Asp-RS

ARS aminoacyl-tRNA synthetases

hh-Rz RNA CAP

ncRNA/ncDNA

��

D. Mckay W. G.

Scott hh-Rz

DNA RNA

Watson Crick

Macromolecular crystallography

Protein crystallography

DNA -endo -endo RNA

RNA DNA

ncRNA/ncDNA

LINE/SINE

segmental A PABP

-UTR segmental

Myotonic dystrophy CTG n n=

Huntington disease CAG m m=

ccGA[G]4Agg 8

PABP mRNA segmental --

AAAAAAA-- 6-7

ARS R. Giege IBMC

mRNA mRNA

Akio TAKENAKA ��

��

� �

Yesterday

Noriko HARAGUCHI

Water Bears

Tardigrada

My Fair Water Bears !

cDNA Tun Tun

ENU Tun

Tun Tun

Kyoko KOSAKA

Department of Biochemistry

Brandeis University

��

Melissa Moore

Melissa

pre-mRNA

Exon Junction Complex (EJC)

EJC mRNA

EJC Exon Junction Complex

pre-mRNA mRNAEJC

eIF AIII EJC mRNAEJC mRNA

mRNA EJC

exon-exon junction

mRNA EJC

NMD (nonsense mediated mRNA decay)

complex Accession

number

EJC EJC

Toshiharu SHIBUYA

Department of BiochemistryBrandeis University

Brandeis University, Melissa Moore HHMI

tshib@brandeis.edu

��

��Moore

Public

Understanding of Science, No.1, p45-68

Scientific

truth is contingent with conditions.

Jasanoff

operationali-

zation

over-generalization

operationalization

publicYuko FUJIGAKI

Proposals

Relating to the Education of Youth in Pensilvania (1749)

one that would offer practical as well as

classical instruction in order to prepare youth for real-world

pursuits

Stanford

Department of Biological Sciences

Stanford

http://www.stanford.edu/class/biosci158/

Yasuyuki KURIHARA

....the basic idea is how you think, at some point the student,

in close collaboration with the advisor, has formed a clear and

presentable thesis project, and has demonstrated competence in

completing it, usually by experimental and written progress. At

a minimum, the student should be able to present orally and in

writing a project that will lead to several quality publications.

qualifying exam

Colin A. Smith

Qualifying exam

Stipend

Washington University in St. Louis WUSTL

Colin A. Smith

American University of Beirut Assistant Professor

UCSF Program

in Biological Sciences (PIBS)

Teaching Assistant

Colin WUSTL

Chemistry Department TA

rotations

entrance examinations cumulative exami-

nations for advancements Colin

WUSTL In my program, the first

week we arrived were used to give us entrance exams, to see if

we had any deficiencies, and to make sure we remembered

enough basic chemistry to be Teaching assistants in the

undergraduate lab courses. Out of 15-20 of us, I think three or

so had to do all the freshman lab experiments before they could

be Teaching assistants. Then we had a series of cumulative

exams, offered 3 times a semester, sometimes related to a

course, sometimes not, each time given by a different professor

in the program, and we were strongly encouraged to take every

one until we passed four. We had to pass two exams in the first

four semesters (2/12) and four by the end of the sixth semester

(4/18). The best students passed the first four they took, most

students finished in the second year, and the weaker students

just made it.

with the help of

Colin A. Smith

��

Qualifying Exam

Qualifying Exam UCSF PIBS Orals proposal

thesis

committee

defense Colin

UCSF PIBS Qualifying Exam

Qualifying exam

Research

proposal

UCSF PIBS Secondary orals

proposal

Qualifying exam

Research proposal written proposal

Qualifying exam

NIH web site

Significance; Approach; Innovation; Investi-

gator Environment (http://www.niaid.nih.gov/ncn/grants/basics/)

defend

Colin ......in US academics, whether

one is submitting a proposal or a publication, great weight is put

on being able to defend the importance and conclusions of the

work. I think the guiding principle in all these evaluations is to

set up a somewhat adversarial process, where the proponent

tries to convince others that the work is interesting and good,

and the evaluators question the arguments. In this way, whether

the scientist is trying to pass a qualifying exam, or thesis

defense, or get a paper published, or present a talk at a

professional conference, or even RNA club, this aspect is the

Stipend

Colin Stipend

A stipend is a salary, but it

has the sense of a salary for a specific

purpose, pay that is sufficient for living expenses, but not

competitive with an open market. The original use was to

describe soldier' s pay, but is most often used to describe the

compensation for students or fellows. You will also often see it

used for short-term purposes, such as a stipend for daily

expenses while traveling.

Biomedicine

NIH NSF

WUSTL Biomedical Department Colin

Ingrid Ghattas NIH training grant

NIH training grant

NSF Howard Hughes

External funding

UCSF UCSF PIBS

in US academics, whether one

is submitting a proposal or a

publication, great weight is put

on being able to defend the

importance and conclusions of

the work

Colin In the US, the stipend is meant to be

enough to live on, and depending on how expensive the city, to

live alone, eat well, travel, and save money (not in San

Francisco). UCSF Web site

Biophysics

San Francisco

stipend

http://www.nigms.nih.gov/funding/trngmech.html#b/

http://www.ehr.nsf.gov/dge/programs/

http://www.hhmi.org/grants/funding/indiv/precomp.html/

http://biophysics.ucsf.edu/bp_adm.html#financial/

.....it

was typical, the student designs the experiments, orders the

materials, carries out the experiment, analyses the results, and is

responsible for writing the first draft of the publication. The

advisor provides the laboratory and funds, and discusses

everything else as much as the student requests or need (judged

by the advisor), which means a substantial contribution to the

research questions, the experimental strategy, interpretation, and

almost always, great scientific and editorial contributions to the

final published work.

UCSF Ira

Herskowitz UCSF

ColinIngrid Celine Colin

Kazuo HARADA��

��

WashingtonUniversity, Ph.D

MologenAG, Berlin, Leader of Basic Research

Assistant Professor

Colin A. SmithAmerican Universityof Beirut, Lebanon

��

Molecular Biology

of the Gene

maturase

MS2 RNA

RNase P RNA

RNase P

ATP U snRNA

Naoyuki KATAOKA

Dreyfuss

��

non-coding RNA

prototype neotype

prototype general basic

neotype specific individualized

non-coding RNA

transcriptional interference

mRNA RNAi

(gene silencing) non-coding RNA

off-switch

770-8503 3-18-15Tel: 088-633-9450 Fax: 088-633-9451e-mail: siomi@genome.tokushima-u.ac.jp

http://db.shichiou-net.jp/rna/

trna tu gtp trnancrna.jp/nl/rna3-1.pdfktqt 1 s f Ñ Å ~ ¸ 6sob!cjpmphz 7 6 } h ¾ æ j Ð hrna x *...

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