Segura reached on a fielder's choice in the third, then was doubled off first on a hard line drive by Mitch Haniger right at Astros first baseman Yulieski Gurriel.
The 26-year-old Segura led the National League in hits last year for the D-backs and was Seattle's biggest offseason addition, acquired along with Haniger in a trade that sent right-hander Taijuan Walker and shortstop Ketel Marte to Arizona.
Segura has started off this season by hitting .313 (10-for-32) from the leadoff spot, with one home run, three RBIs, six runs and three stolen bases in Seattle's first eight games.