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The handle http://hdl.handle.net/1887/20170 holds various files of this Leiden University dissertation.

Author: Knip, Marijn

Title: Daysleeper : from genomic parasite to indispensable gene

Date: 2012-11-22

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8 Chapter 8

>ŝƐt ŽĨ ďďreǀŝaƟŽŶƐ

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8

>ŝƐt ŽĨ ďďreǀŝaƟŽŶƐ

dŚŝƐůŝƐƚĐŽŶƚĂŝŶƐĚĞƐĐƌŝƉƟŽŶƐŽĨŵŽƐƚĂďďƌĞǀŝĂƟŽŶƐƵƐĞĚŝŶƚŚŝƐƚŚĞƐŝƐ͘dŚŝƐůŝƐƚĐŽŶƚĂŝŶƐ

ƐŽŵĞ͕ďƵƚŶŽƚĂůů͕ĂďďƌĞǀŝĂƚĞĚŐĞŶĞĂŶĚƉƌŽƚĞŝŶŶŽŵĞŶĐůĂƚƵƌĞƵƐĞĚŝŶƚŚŝƐǁŽƌŬ͘^ŽŵĞ

ĐŽŵŵŽŶůLJŬŶŽǁŶĂďďƌĞǀŝĂƟŽŶƐĂƌĞŶŽƚŝŶĐůƵĚĞĚ͘

μg Microgram

μl Microliter

μm Micrometer

μM Micromolar

3-AT 3-Amino-1,2,4-triazole

AA Amino acid

Wͬ   ŶĂƉŚĂƐĞͲƉƌŽŵŽƟŶŐĐŽŵƉůĞdžͬLJĐůŽƐŽŵĞ

Z&   ƵdžŝŶƌĞƐƉŽŶƐĞĨĂĐƚŽƌ

Z   ;dͿĚŽŵĂŝŶͲĐŽŶƚĂŝŶŝŶŐƉƌŽƚĞŝŶͲh>ϯͲZ/E'ƉƌŽƚĞŝŶ

njŝŶĐĮŶŐĞƌ  &ĂŶĚZ&njŝŶĐĮŶŐĞƌ

ŝ&   ŝͲŵŽůĞĐƵůĂƌŇƵŽƌĞƐĐĞŶĐĞĐŽŵƉůĞŵĞŶƚĂƟŽŶ BLAST Basic Local Alignment Search Tool

Bp Base pair

;ͲƚĞƌŵŝŶƵƐͿ  ĂƌďŽdžLJͬKK,;ͲƚĞƌŵŝŶƵƐͿ

ĂDs   ĂƵůŝŇŽǁĞƌDŽƐĂŝĐǀŝƌƵƐ

ĐE   ŽƉLJŽƌĐŽŵƉůĞŵĞŶƚE;ƐĞĞ͗EͿ

&W   LJĂŶŇƵŽƌĞƐĐĞŶƚƉƌŽƚĞŝŶ

,DW   ŚĂƌŐĞĚDƵůƟͲǀĞƐŝĐƵůĂƌWƌŽƚĞŝŶ;ŽƌŚƌŽŵĂƟŶDŽĚŝĨLJŝŶŐWƌŽƚĞŝŶͿ

,y   LJĐůŽŚĞdžĂŵŝĚĞ

Col Columbia

KW   ŽŶƐƟƚƵƟǀĞůLJƉŚŽƚŽŵŽƌƉŚŽŐĞŶŝĐ CRL Cullin RING Ligase

CSN COP9 Signalosome

CUL Cullin

ĚĂŐ   ĂLJƐĂŌĞƌŐĞƌŵŝŶĂƟŽŶ

y   ϭͲh>ϰĂͲyͲďŽdž

DIR Direct repeat

DNA Deoxy ribonucleic Acid DTT Dithiothreitol

d   ƚŚLJůĞŶĞĚŝĂŵŝŶĞƚĞƚƌĂĂĐĞƟĐĂĐŝĚ

^Zd   ŶĚŽƐŽŵĂůƐŽƌƟŶŐĐŽŵƉůĞdžƌĞƋƵŝƌĞĚĨŽƌƚƌĂŶƐƉŽƌƚ EST Expressed sequence tag

&Zϭ   &ĂƌƌĞĚůŝŐŚƚƌĞƐƉŽŶƐĞ

&/   &Zd/>/d/KEͲ/EWEEdEK^WZD

&Z^ϯ   &ZͲƌĞůĂƚĞĚƐĞƋƵĞŶĐĞϯ ŐE   'ĞŶŽŵŝĐE;ƐĞĞ͗EͿ '&W   'ƌĞĞŶŇƵŽƌĞƐĐĞŶƚƉƌŽƚĞŝŶ

Gm Gentamycin

GUS Beta-glucuronidase ,Ϯ   ,ŝƐƚŽŶĞϮ

hAT transposon hoboͬĐͬdĂŵϯƚƌĂŶƐƉŽƐŽŶ

/   /ŶĚŽůĞͲϯͲĂĐĞƟĐĂĐŝĚ

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8

miRNA MicroRNA

ml Milliliter

mm Millimeter

mM Millimolar

ŵZE   DĞƐƐĞŶŐĞƌZE;ƐĞĞ͗ZEͿ MS Murashige and Skoog D^/ϭ;ͬϰͿ   DƵůƟͲĐŽƉLJƐƵƉƉƌĞƐƐŽƌŽĨ/Z

Ds   DƵůƟǀĞƐŝĐƵůĂƌďŽĚLJ

Myr Million years

E;ͲƚĞƌŵŝŶƵƐͿ  ŵŝŶŽͬE,

2

;ͲƚĞƌŵŝŶƵƐͿ NEB New England Bioscience

ng Nanogram

E/,   EĂƟŽŶĂů/ŶƐƟƚƵƚĞŽĨ,ĞĂůƚŚ E>^   EƵĐůĞĂƌůŽĐĂůŝnjĂƟŽŶƌĞĂĐƟŽŶ

nm Nanometer

nM Nanomolar

npcRNA Non-protein coding RNA EW,ϯ   EŽŶͲƉŚŽƚŽƚƌŽƉŝĐŚLJƉŽĐŽƚLJů

EZ>ϴ   EW,ϯͬZWdϮͲ>ŝŬĞ

EtK EĞĚĞƌůĂŶĚƐĞŽƌŐĂŶŝƐĂƟĞǀŽŽƌǁĞƚĞŶƐĐŚĂƉƉĞůŝũŬŽŶĚĞƌnjŽĞŬ;ƵƚĐŚŽƌŐĂŶŝnjĂƟŽŶĨŽƌ

ƐĐŝĞŶƟĮĐƌĞƐĞĂƌĐŚͿ KZ& KƉĞŶƌĞĂĚŝŶŐĨƌĂŵĞ WZ   WŽůLJŵĞƌĂƐĞĐŚĂŝŶͲƌĞĂĐƟŽŶ WD^&   WŚĞŶLJůŵĞƚŚĂŶĞƐƵůĨŽŶLJůŇƵŽƌŝĚĞ

PPT Phosphinotrycin

PRC Ploycomb-repressive complex Y   YƵŝĞƐĐĞŶƚĐĞŶƚĞƌ

ƋZdͲWZ   YƵĂŶƟƚĂƟǀĞZĞǀĞƌƐĞdƌĂŶƐĐƌŝƉƟŽŶWZ;^ĞĞ͗WZͿ ZĂď'ϯ   Z'dW^,KDK>K''ϯ

ZĚD   ZEͲĚŝƌĞĐƚĞĚEŵĞƚŚLJůĂƟŽŶ Z&W   ZĞĚŇƵŽƌĞƐĐĞŶƚƉƌŽƚĞŝŶ Z,ϭ   ZĂďͲŚŽŵŽůŽŐ&Ϯ;ƐĞĞ͗ZĂďͿ

RNA Ribonucleic Acid

RPT2 Root phototropism 2 RRP6 ribosomal RNA processing 6

SA Salicylic Acid

SAGE Serial Analysis of Gene Expression

^&   ^ŬƉϭͲƵůϭͲ&ͲŽdž

SINE Short interspersed Nuclear Element siRNA Small interfering RNA

^Eyϭ   ^ŽƌƟŶŐEĞdžŝŶϭ

SUL Sulfadiazine

dĂŐZ&W   dĂŐZĞĚŇƵŽƌĞƐĐĞŶƚƉƌŽƚĞŝŶ

TAM Tamoxifen

ƚĂƐŝZE   dƌĂŶƐͲĂĐƟŶŐƐŝZE  dͲE   dƌĂŶƐĨĞƌE;ƐĞĞ͗EͿ TE Transposable element TIR Terminal inverted repeat d^   dĂƌŐĞƚƐŝƚĞĚƵƉůŝĐĂƟŽŶ

hY   hďŝƋƵŝƟŶ

hdZ   hŶƚƌĂŶƐůĂƚĞĚƌĞŐŝŽŶ;ƌĞĨĞƌƌŝŶŐƚŽŐĞŶĞͲƚƌĂŶƐĐƌŝƉƚƐͿ sW^   sĂĐƵŽůĂƌƉƌŽƚĞŝŶƐŽƌƟŶŐ

z&W   zĞůůŽǁŇƵŽƌĞƐĐĞŶƚƉƌŽƚĞŝŶ

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8

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