我认为，原英文句子有误。多了一个from，应去掉，改为：

1. Either way, if its roots are pulled up out of the ground as the tree topples over, then there’s usually a big hole, a pit left in the ground where the roots used to be.

【翻译】不管是哪种方式，如果在树倒下时，它的根从地里被拔起，那么通常会有一个大洞，即树根曾经所在的地里面留下一个坑。

第二种改法：保留from，把out of 改为under： from under the ground，因为from out of the ground 讲不通。

2. Either way, if its roots are pulled up from under the ground as the tree topples over, then there’s usually a big hole, a pit left in the ground where the roots used to be.

【翻译】不管是哪种方式，如果在树倒下时，它的根从地下被拔起，那么通常会有一个大洞，即树根曾经所在的地里面留下一个坑。

from 后跟介词短语，实际是一种省略说法，是在两个介词之间省略了somewhere（某个地方）。例如：

1. from behind the door = from somewhere behind the door  从门后的某个地方

2. from under the ground = from somewhere under the ground  从地面以下的某个地方

3. from out of the ground = from somewhere out of the ground  从脱离地面的某个地方（本句讲不通）

例句：

The stranger is difficult to recognize from among the crowd. 那个陌生人很难从人群中辨认出来。　　

She picked up several bigger eggs from within the box. 她从箱子里面挑选了几个较大的鸡蛋。　　

A red flag rose up from before the building. 一面红旗从大楼前升了起来。

That is a force pushing outwards from inside the moon. 那是一种从月球内向外推的力。

from out of the ground

介词from可以后接介词短语。例如，from behind the door. from under the water.

我认为，本句中from out of the ground指的是树倒下的时候，由于杠杆作用，产生一种向上的力，将树根拔起。from短语应该指的是力的来源，而不是表示树根原来的位置。因为out of ground无法解释为地底下。