High-speed　rail　is　an　important　transportation　infrastructure　that　can　promote　regional　economic　growth　and　adjust　industrial　layout.　To　explore　the　impact　of　high-speed　rail　construction　on　the　industrial　spatial　layout　of　China＇s　Bay　Area,　the　effects　of　high-speed　rail　construction　on　industrial　spatial　layout　of　the　Circum-Bohai　Great　Bay　Area,　the　Circum-Yangtze　Estuary　Great　Bay　Area,　and　the　Guangdong-Hong　Kong-Macao　Greater　Bay　Area　in　China　were　analyzed　by　using　DID　(difference-in-differences)　model　and　quantile　treatment　effect　based　on　the　panel　data　obtained　from　2005　to　2016.　Results　demonstrate　that　high-speed　rail　construction　significantly　affects　industrial　spatial　layout　of　urban　areas.　Due　to　high-speed　rail　construction,　manufacturing　and　real　estate　industries　in　the　Circum-Bohai　Great　Bay　Area　expand　greatly　and　show　a　significant　diffusion　effect.　This　diffusion　promotes　agglomeration　of　wholesale　and　retail,　real　estate,　transportation,　warehousing,　and　post　industries　in　small　cities.　High-speed　rail　construction　exhibits　an　agglomeration　effect　on　financial　industry　in　the　Circum-Yangtze　Estuary　Great　Bay　Area.　High-speed　rail　construction　facilitates　clustering　of　manufacturing,　financial,　and　transportation　industries　in　small　cities.　The　impact　of　high-speed　rail　construction　on　manufacturing,　accommodation　and　catering,　financial,　transportation,　warehousing,　and　post　industries　in　Guangdong-Hong　Kong-Macao　Greater　Bay　Area　shows　a　diffusion　effect.　In　sum,　high-speed　rail　construction　causes　an　evolution　of　industrial　agglomeration　in　three　great　bay　areas　in　China.　The　conclusion　provides　decision　references　for　optimization　of　industrial　spatial　layout　in　great　bay　areas.