From: bassam al-kindy <bassam.al-kindy@lifc>
Date: Mon, 2 Dec 2013 15:37:14 +0000 (+0100)
Subject: add discussion file
X-Git-Url: https://bilbo.iut-bm.univ-fcomte.fr/and/gitweb/chloroplast13.git/commitdiff_plain/66d1141218f190b9d6a8997af7d8ef784db3208e?ds=inline;hp=-c

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+The interesting with the tree produced (especially from DOGMA) is 
+that organisms resulting from the first endosymbiosis are distributed in 
+every of the lineage found in the chloroplast genome structure 
+evolution: with Red Algae chloroplasts together in one lineage, and 
+Green Algae and Land Plants chloroplasts together in antoher lineage; 
+while oranisms resulting from secondary endosymbioses are localized in 
+the tree: both the chloroplasts of Brown Algae and Dinoflagellates 
+representatives are found exclusively in the lineage also comprising the 
+Red Algae chloroplasts from which they evolved, while the Euglens 
+chloroplasts are related to the Green Algae chloroplasts from which they 
+evolved. This make sense in term of biology and history of lineages and 
+theories of chloroplasts (and so photosynthetic ability) origins in 
+different Eucaryotic lineages.
+Interestingly, The sole organisms included that possesses a 
+chloroplast (and so a chloroplastic genome) but that have lost the 
+photosynthetic ability (being parasitic plant) are found at the base of 
+the tree, and not together with its related species phylogenetically, 
+meaning that functional chloroplast genes are evolutionnary constrained 
+when used in photosynthetic process, but loose rapidly their efficiency 
+when not used. They are Cuscuta-grovonii an Angiosperm (flowering plant) 
+at the base of the DOGMA Angiosperm-Conifers branch, and 
+Epipactis-virginiana also an Angiosperm at the complete base of the tree.
+Another interesting result in your work is that Land Plants that 
+represent single sublineage originating from the large and diverse 
+lineage of Green Algae in Eucaryots history are present in two different 
+branches of the DOGMA tree, associated with Green Algae, one branch 
+comprising the "inferior" Land Plants (mosses and ferns) and the second 
+comprising the "superior" Land Plants (Conifers and flowering plants). 
+But independently of their split in two distinct branches of the DOGMA 
+tree, the Land Plants always show a higher number of functional genes in 
+their chloroplasts than their related Green Algae, probably meaning that 
+terrestrial way of life necessitates more functional genes for an 
+optimal photosynthesis than marine way of life. But a more detailed 
+analysis of selected genes is necessary to better understad the reasons why.