( But ( ( the ( ancestral phylogenies ) ) ( ( ( are not ) extinct ) . ) ) )
(ROOT (S (CC But) (NP (DT the) (JJ ancestral) (NNS phylogenies)) (VP (VBP are) (RB not) (ADJP (JJ extinct))) (. .)))
But the ancestral phylogenies are not extinct.
(ROOT (S (NP (NNP Phylogeny)) (VP (VBZ is) (NP (NP (DT the) (NN science)) (SBAR (WHNP (WDT that)) (S (VP (VBZ describes) (NP (NP (DT the) (ADJP (JJ ancestral) (CC and) (JJ descendant)) (NNS connections)) (PP (IN between) (NP (NNS organisms))))))))) (. .)))