Microsatellite analysis in organelle genomes of chlorophyta(論文討論)

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Published on February 17, 2014

Author: BillPeng

Source: slideshare.net

is  in   nalys lite  a es  of   satel nom icro le  ge M anel   org ta   hy rop hlo C

Microsatellites…  

Simple  Sequence  Repeats  (SSRS)   Simple  Sequence  Length  Polymorphisms   (SSLPS)    

Highly  Abundant  In  Prokaryotes  And  Eukaryotes    

Both  In  Coding  And     Non-­‐Coding  Regions    

Neutral?    

Hot  Spot!  

Inherently  Unstable   Mendelian  Manner  

Highly   Variable    

Powerful  GeneMc  Markers:     Locus-­‐specific   Co-­‐dominant   PCR-­‐based     Highly  Polymorphic    

DistribuMon  Of  SSRs  In  The   Genome  Is  Not  Random!  

Previous:      Coding  Or  Gene-­‐rich  Regions   +    Nuclear-­‐  Genome  Based    

Current  :      DeterminaMon  At  The  Whole    Genome  Level!  

Chloroplast  And  Mitochondrial     Genomes  Of  Chlorophyta  

Organelle  genome  sequence   source    

IdenMficaMon   of  SSRs    

1 Frequency  Of  SSRs  In  Chloroplast   And  Mitochondrial  Genomes    

Varying  

The  Frequencies  Of  SSRs   Chloroplast   Mitochondria  

Algal  Species  :   No  RelaMonship     Between  The  Frequencies  Of  Simple   And  Compound  SSRs    

2 DistribuMon  of  SSRs  in  genic   and  intergenic  regions  

The  Major  ProporMon  Of  SSRs     Intergenic  Regions   Genic  And   Intragenic   Regions    

Chloroplast  

Mitochondria  

“The  differences  in  frequency   suggest  that  the  polymorphism   associated  with  coding  regions  is   lower  than  non-­‐coding  region.”   non-­‐coding  region   coding  region  

“The  microsatellite  pa^erns   making  it  impossible  to  measure   associated  relatedness  and   polymorphism  present  within   alleles.”    

3 SSR  Pa^erns    

mono-­‐nucleoMde  repeats,   poly  A/T.    

DinucleoMde  repeat   pa^erns  were  less  frequent   Maximum  dinucleoMde   repeats  was  poly  AT/TA  

The  major  di-­‐ nucleoMde  repeat   pa^ern  in   Chlorophyta   organellar  genomes   had  shown  the   similarity  with   organelle  and   nuclear  genomes  of   higher  taxa  

In  very  minute  amounts   other  repeat  pa^ern  tetra-­‐,   penta-­‐,  hexa-­‐  were   observed  

SSRs  in  nuclear  ESTs  of  other  plant   species  and  some  cereal  species   tri-­‐nucleoMde  repeats  were  the   most  abundant  class  followed  by   di-­‐nucleoMde  repeats    

FuncMonal  categorizaMon  of   genes  having  microsatellites     4

In  all  chloroplast     genomes…   In  mitochondrial     genomes…  

Conclusion    

The  study  is  important  in  term  of   revealing  the  simple  repeat   pa^erns  in  organellar  genomes  of   lower  plant  species  and  to   measure  their  abundance  and   polymorphism.    

Suggest  the  evoluMon  of  chloroplast   and  mitochondrial  genomes   independent  of  nuclear  genomes.    

EvoluMonary  Factors  With   Different  Rate  And  Randomness:     Significant  Differences  In  SSR   Pa^erns  Among  Members  Of   Same  Family  

T u!    yo ank h

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