本文以PCR/RFLP及核苷酸序列分析紅檜與台灣扁柏之葉綠體基因組之多型性。結果發現紅檜與台灣扁柏於棲蘭山與阿里山兩族群間，在兩個葉綠體DNA之基因間區間序列其限制酶片段長度及核苷酸序列均沒有差異。如此低的遺傳變異可能是因為現今之紅檜與台灣扁柏族群為冰河期存在之大族群的殘留小族群，而未必是花粉散播所提供之基因交流極為頻繁所造成。trnV-trnM基因間區間序列在紅檜與台灣扁柏兩者間有兩個HinfI之酶切點之差異，在PetG-trnP基因間區間序列也發現台灣扁柏與紅檜之間有限制酶片段長度及其他點突變。紅檜與台灣扁柏間之親源關係，仍有待與其它扁柏屬植物，特別是日本扁柏比較後才能明確瞭解。
Polymorphisms in the chloroplast genome of C. formosensis and C. taiwanensis were investigated by a PCR-based RFLP and nucleotide sequences. No fragment length nor nucleotide sequence differences were detected for 2 chloroplast intergenic spacers between Chilanshan and Alishan populations in both Chamaecyparis species. Low genetic variation has probably resulted from the refugial nature of these populations since the last glaciation rather than from recurrent pollen dispersal between Chilanshan and Alishan populations of these 2 Chamaecyparis species. Two Hinfl restriction site differences were found in the trnV-trnM intergenic spacer between C. formosensis and C. taiwanensis. Fragment length difference as well as point mutations in the petG-trnP intergenic spacer between C. formosensis and C. taiwanensis were also found. Further comparison with other Chamaecyparis species, especially C. obtusa, is required in order to understand the phylogenetic relationship between C. formosensis and C. taiwanensis.
